Paired-Kmers: finding conserved regions in highly diverse genomes

Introduction

It is a challenge to identify long enough conserved regions for PCR primer design in highly diverse genomes, such as virus and bacteria. Both multiple sequence alignment and k-mer based alignment free methods are utilized for the task. However, with more and more genome sequences are available, the computational and computer memory requirements are still the bottleneck.

Here, we propose a fast and memory-efficient k-mer based method, which we named Paired-Kmers, to identify two regions that are close to each other but not necessarily contiguous for picking primers. Importantly, we implemented column-based and row-based reduction methods to overcome memory bottleneck when analyzing species with large genome sizes and species with millions of different strains.

Paired-Kmers is a general tool to identify conserved regions from microbial genomes.

Installation

Download the latest pre-compiled binaries from: https://github.com/quwubin/paired-kmers/releases

tar zxvf paired-kmer-xxx-amd64.tar.bz

./paired-kmers -h

Usage

./paired-kmers -k 17 -c 16 -s 90 -S 300 -i test/hpv16.fa -o test/hpv16.paired_kmers.bed

Output

There are two output files, one is "hpv16.paired_kmer.bed", and the other is "hpv16.paired_kmer.bed.mid.bed".

For each file, each row is a conserved region represented by one chrosome location. There are 8 columns in file "hpv16.paired_kmer.bed".

The 1st column is the represented chromosome;
The 2nd column is the inner position (3' end) of left kmer;
The 3rd column is the inner position (5' end) of right kmer;
The 4th column is the number of covered records of this conserved paired-kmer;
The 5th column is the records covered percent of this conserved paired-kmer;
The 6th is the left kmer sequence;
The 7th is the right kmer sequence;
The 8th is the records name list seperated by space.

Instead of the inner location of paired-kmers, file "hpv16.paired_kmer.bed.mid.bed" stores the middle position of the paired-kmers. This file is used for program (or scripts) reading and further processing.

# paired-kmers -i hpv16.fa -o hpv16.paired_kmer.bed -k 17 -s 90 -S 300 -f
# inner position
# chr	innerStart	innerEnd	hitNumber	hitPercent(%)	leftKmer	rightKmer	wholeSeq	wholeSize	hitRecords
JN565303.1	1751	2015	506	100.00	CATGGGGAATGGTTGTG	GGCCTACGATAATGACA	CATGGGGAATGGTTGTGTTTCTATTAGTAAGATATAAATGTGGAAAAAATAGAGAAACAATTGAAAAATTGCTGTCTAAACTATTATGTGTGTCTCCAATGTGTATGATGATAGAGCCTCCAAAATTGCGTAGTACAGCAGCAGCATTATATTGGTATAAAACAGGTATATCAAATATTAGTGAAGTGTATGGAGACACGCCAGAATGGATACAAAGACAAACAGTATTACAACATAGTTTTAATGATTGTACATTTGAATTATCACAGATGGTACAATGGGCCTACGATAATGACA	297	JN565303.1 KY549224.1 KY549225.1 JQ004093.1 JN565302.1 JQ067943.1 JQ067944.1 KY549166.1 KY549200.1 KY549211.1 KY549246.1 KY549247.1 KY549248.1 LC456192.1 LC647441.1 LC368984.1 LC368964.1 LC368976.1 LC456187.1 FJ006723.1 KU684311.1 HM057182.1 LC644181.1 MK484705.1 JQ004092.1 KY549221.1 KY549274.1 KY549275.1 KY549276.1 LC644189.1 HQ644253.1 KY549160.1 KY549164.1 KY549287.1 KY549288.1 HQ644242.1 HQ644270.1 HQ644298.1 AB889493.1 KU684313.1 KU684315.1 KY549167.1 KY549234.1 KY549235.1 KY549236.1 LC456623.1 MN961212.1 MN961214.1 MN961216.1 MN961217.1 MW320358.1 AF472508.1 HQ644238.1 HQ644240.1 HQ644241.1 HQ644255.1 HQ644269.1 HQ644277.1 HQ644290.1 HQ644293.1 KU641509.1 KU684314.1 KY549171.1 KY549206.1 KY549208.1 KY549222.1 KY549223.1 KY549298.1 KY549299.1 LC368953.1 LC368993.1 LC456190.1 LC456618.1 MT783409.1 MN961210.1 MN961213.1 AY686582.1 AY686583.1 JQ004097.1 HQ644254.1 HQ644259.1 HQ644278.1 AB818689.1 KY549172.1 KY549183.1 KY549184.1 KY549185.1 KY549191.1 KY549196.1 KY549207.1 KY549213.1 KY549219.1 KY549220.1 KY549269.1 KY549270.1 KY549292.1 KY549293.1 KY549296.1 KY549297.1 KY549310.1 KY549311.1 KY549318.1 KY549319.1 LC368979.1 LR861899.1 LC644166.1 LC644190.1 AF402678.1 AF536180.1 AY686579.1 AY686580.1 AY686581.1 AY686584.1 EU118173.1 FJ610146.1 FJ610147.1 FJ610148.1 FJ610149.1 FJ610151.1 JQ004095.1 JQ004098.1 HQ644247.1 HQ644256.1 HQ644258.1 HQ644260.1 HQ644262.1 HQ644263.1 HQ644264.1 HQ644266.1 HQ644267.1 HQ644271.1 HQ644273.1 HQ644276.1 HQ644279.1 HQ644285.1 HQ644288.1 HQ644289.1 KC935953.1 AB818688.1 AB818691.1 AB889488.1 AB889489.1 KF954093.1 KF880690.1 KU298880.1 KU298881.1 KU298885.1 KU684312.1 KU684316.1 KU684317.1 NC_001526.4 KY883659.1 KY549161.1 KY549175.1 KY549177.1 KY549178.1 KY549180.1 KY549182.1 KY549187.1 KY549188.1 KY549189.1 KY549190.1 KY549193.1 KY549194.1 KY549198.1 KY549199.1 KY549201.1 KY549202.1 KY549203.1 KY549205.1 KY549214.1 KY549215.1 KY549216.1 KY549226.1 KY549227.1 KY549228.1 KY549229.1 KY549230.1 KY549232.1 KY549233.1 KY549241.1 KY549242.1 KY549244.1 KY549245.1 KY549249.1 KY549250.1 KY549251.1 KY549252.1 KY549253.1 KY549254.1 KY549257.1 KY549258.1 KY549261.1 KY549265.1 KY549266.1 KY549267.1 KY549268.1 KY549271.1 KY549272.1 KY549273.1 KY549277.1 KY549280.1 KY549281.1 KY549285.1 KY549286.1 KY549289.1 KY549290.1 KY549291.1 KY549294.1 KY549295.1 KY549300.1 KY549301.1 KY549302.1 KY549303.1 KY549304.1 KY549305.1 KY549306.1 KY549307.1 KY549308.1 KY549309.1 KY549312.1 KY549313.1 KY549314.1 KY549315.1 KY549316.1 KY549317.1 KY549320.1 KY549321.1 KX947269.1 KX947270.1 KX947271.1 KX947272.1 KX947273.1 KX947274.1 KX947275.1 KX947276.1 KX947277.1 KX947278.1 KX947279.1 KX947280.1 KX947281.1 KX947282.1 KX947283.1 KX947284.1 KX947285.1 LC368954.1 LC368956.1 LC368967.1 LC368968.1 LC368977.1 LC368980.1 LC456182.1 LC456184.1 LC456186.1 LC456191.1 LC456197.1 LC456199.1 LC456201.1 LC456633.1 LC456637.1 LC456629.1 LC456628.1 LC456627.1 LC456617.1 LC456615.1 LC456614.1 LC456610.1 LC456608.1 LC511107.1 LC511112.1 LR861897.1 MT783410.1 MN961215.1 LC644165.1 LC644167.1 LC644169.1 LC644171.1 LC644172.1 LC644180.1 LC644183.1 LC644184.1 LC644186.1 LC644191.1 LC647437.1 LC647438.1 LC647439.1 AF534061.1 FJ610150.1 FJ610152.1 JQ004094.1 JQ004096.1 HQ644234.1 HQ644235.1 HQ644236.1 HQ644237.1 HQ644239.1 HQ644245.1 HQ644246.1 HQ644249.1 HQ644261.1 HQ644274.1 HQ644275.1 HQ644280.1 HQ644281.1 HQ644284.1 HQ644296.1 HQ644297.1 HQ644299.1 AB818692.1 AB818693.1 AB889490.1 AB889491.1 AB889492.1 AB889494.1 LC193821.1 KY549156.1 KY549157.1 KY549158.1 KY549159.1 KY549162.1 KY549163.1 KY549165.1 KY549168.1 KY549169.1 KY549170.1 KY549173.1 KY549174.1 KY549176.1 KY549179.1 KY549181.1 KY549186.1 KY549192.1 KY549195.1 KY549197.1 KY549204.1 KY549217.1 KY549218.1 KY549237.1 KY549238.1 KY549239.1 KY549240.1 KY549243.1 KY549255.1 KY549256.1 KY549259.1 KY549260.1 KY549264.1 KY549278.1 KY549279.1 KY549282.1 KY549283.1 LC368952.1 LC368955.1 LC368957.1 LC368960.1 LC368961.1 LC368962.1 LC368963.1 LC368965.1 LC368969.1 LC368970.1 LC368971.1 LC368972.1 LC368973.1 LC368974.1 LC368975.1 LC368978.1 LC368981.1 LC368983.1 LC368985.1 LC368986.1 LC368988.1 LC368989.1 LC368990.1 LC368991.1 LC368992.1 LC368994.1 LC368995.1 LC368996.1 LC368997.1 MH892050.1 LC456181.1 LC456183.1 LC456185.1 LC456189.1 LC456194.1 LC456196.1 LC456198.1 LC456200.1 LC456630.1 LC456631.1 LC456632.1 LC456634.1 LC456635.1 LC456636.1 LC456625.1 LC456622.1 LC456621.1 LC456620.1 LC456619.1 LC456616.1 LC456613.1 LC456611.1 LC456609.1 LC456606.1 LC511106.1 LC511108.1 LC511109.1 LC511110.1 LC511111.1 MN961211.1 LC644170.1 LC644173.1 LC644174.1 LC644175.1 LC644176.1 LC644177.1 LC644178.1 LC644179.1 LC644188.1 LC647442.1 LC647443.1 LC647445.1 LC647446.1 LC647448.1 LC647449.1 LC647450.1 LC647451.1 LC647452.1 LC647453.1 LC647454.1 LC647455.1 LC647456.1 K02718.1 AF125673.1 AF472509.1 AF536179.1 EU918764.1 HQ644243.1 HQ644244.1 HQ644248.1 HQ644250.1 HQ644251.1 HQ644252.1 HQ644268.1 HQ644291.1 HQ644292.1 HQ644294.1 HQ644295.1 KU298883.1 KY549209.1 KY549210.1 KY549212.1 KY549262.1 KY549263.1 KY549284.1 LC368958.1 LC368987.1 KY994539.1 LC456180.1 LC456188.1 LC456193.1 LC456195.1 LC456626.1 LC456607.1 LC644182.1 LC644185.1 LC647447.1 HQ644265.1 HQ644282.1 HQ644283.1 HQ644286.1 AB818687.1 AB818690.1 LC368959.1 LC647457.1 HQ644272.1 KY549231.1 HQ644287.1 KP212151.1 KP212152.1 KP212156.1 KP212157.1 KP212159.1 LC456624.1 KP212153.1 KP212154.1 HQ644257.1 LC644168.1 LC368982.1 LC647440.1 LC644164.1 JQ004099.1 LC368966.1 KP212155.1 KU298882.1 LC456612.1 LC647444.1 KP212150.1 KP212158.1 KP874717.1 KP874716.1 KP874719.1 KP874718.1 LC511105.1 LC644187.1
JN565303.1	1633	1861	506	100.00	TCAACGTGTTGCGATTG	TGCGTAGTACAGCAGCA	TCAACGTGTTGCGATTGGTGTATTGCTGCATTTGGACTTACACCCAGTATAGCTGACAGTATAAAAACACTATTACAACAATATTGTTTATATTTACACATCCAAAGTTTAGCATGTTCATGGGGAATGGTTGTGTTTCTATTAGTAAGATATAAATGTGGAAAAAATAGAGAAACAATTGAAAAATTGCTGTCTAAACTATTATGTGTGTCTCCAATGTGTATGATGATAGAGCCTCCAAAATTGCGTAGTACAGCAGCA	261	JN565303.1 KY549224.1 KY549225.1 JQ004093.1 JN565302.1 JQ067943.1 JQ067944.1 KY549166.1 KY549200.1 KY549211.1 KY549246.1 KY549247.1 KY549248.1 LC456192.1 LC647441.1 LC368984.1 LC368964.1 LC368976.1 LC456187.1 FJ006723.1 KU684311.1 HM057182.1 LC644181.1 MK484705.1 JQ004092.1 KY549221.1 KY549274.1 KY549275.1 KY549276.1 LC644189.1 HQ644253.1 KY549160.1 KY549164.1 KY549287.1 KY549288.1 HQ644242.1 HQ644270.1 HQ644298.1 AB889493.1 KU684313.1 KU684315.1 KY549167.1 KY549234.1 KY549235.1 KY549236.1 LC456623.1 MN961212.1 MN961214.1 MN961216.1 MN961217.1 MW320358.1 AF472508.1 HQ644238.1 HQ644240.1 HQ644241.1 HQ644255.1 HQ644269.1 HQ644277.1 HQ644290.1 HQ644293.1 KU641509.1 KU684314.1 KY549171.1 KY549206.1 KY549208.1 KY549222.1 KY549223.1 KY549298.1 KY549299.1 LC368953.1 LC368993.1 LC456190.1 LC456618.1 MT783409.1 MN961210.1 MN961213.1 AY686582.1 AY686583.1 JQ004097.1 HQ644254.1 HQ644259.1 HQ644278.1 AB818689.1 KY549172.1 KY549183.1 KY549184.1 KY549185.1 KY549191.1 KY549196.1 KY549207.1 KY549213.1 KY549219.1 KY549220.1 KY549269.1 KY549270.1 KY549292.1 KY549293.1 KY549296.1 KY549297.1 KY549310.1 KY549311.1 KY549318.1 KY549319.1 LC368979.1 LR861899.1 LC644166.1 LC644190.1 AF402678.1 AF536180.1 AY686579.1 AY686580.1 AY686581.1 AY686584.1 EU118173.1 FJ610146.1 FJ610147.1 FJ610148.1 FJ610149.1 FJ610151.1 JQ004095.1 JQ004098.1 HQ644247.1 HQ644256.1 HQ644258.1 HQ644260.1 HQ644262.1 HQ644263.1 HQ644264.1 HQ644266.1 HQ644267.1 HQ644271.1 HQ644273.1 HQ644276.1 HQ644279.1 HQ644285.1 HQ644288.1 HQ644289.1 KC935953.1 AB818688.1 AB818691.1 AB889488.1 AB889489.1 KF954093.1 KF880690.1 KU298880.1 KU298881.1 KU298885.1 KU684312.1 KU684316.1 KU684317.1 NC_001526.4 KY883659.1 KY549161.1 KY549175.1 KY549177.1 KY549178.1 KY549180.1 KY549182.1 KY549187.1 KY549188.1 KY549189.1 KY549190.1 KY549193.1 KY549194.1 KY549198.1 KY549199.1 KY549201.1 KY549202.1 KY549203.1 KY549205.1 KY549214.1 KY549215.1 KY549216.1 KY549226.1 KY549227.1 KY549228.1 KY549229.1 KY549230.1 KY549232.1 KY549233.1 KY549241.1 KY549242.1 KY549244.1 KY549245.1 KY549249.1 KY549250.1 KY549251.1 KY549252.1 KY549253.1 KY549254.1 KY549257.1 KY549258.1 KY549261.1 KY549265.1 KY549266.1 KY549267.1 KY549268.1 KY549271.1 KY549272.1 KY549273.1 KY549277.1 KY549280.1 KY549281.1 KY549285.1 KY549286.1 KY549289.1 KY549290.1 KY549291.1 KY549294.1 KY549295.1 KY549300.1 KY549301.1 KY549302.1 KY549303.1 KY549304.1 KY549305.1 KY549306.1 KY549307.1 KY549308.1 KY549309.1 KY549312.1 KY549313.1 KY549314.1 KY549315.1 KY549316.1 KY549317.1 KY549320.1 KY549321.1 KX947269.1 KX947270.1 KX947271.1 KX947272.1 KX947273.1 KX947274.1 KX947275.1 KX947276.1 KX947277.1 KX947278.1 KX947279.1 KX947280.1 KX947281.1 KX947282.1 KX947283.1 KX947284.1 KX947285.1 LC368954.1 LC368956.1 LC368967.1 LC368968.1 LC368977.1 LC368980.1 LC456182.1 LC456184.1 LC456186.1 LC456191.1 LC456197.1 LC456199.1 LC456201.1 LC456633.1 LC456637.1 LC456629.1 LC456628.1 LC456627.1 LC456617.1 LC456615.1 LC456614.1 LC456610.1 LC456608.1 LC511107.1 LC511112.1 LR861897.1 MT783410.1 MN961215.1 LC644165.1 LC644167.1 LC644169.1 LC644171.1 LC644172.1 LC644180.1 LC644183.1 LC644184.1 LC644186.1 LC644191.1 LC647437.1 LC647438.1 LC647439.1 AF534061.1 FJ610150.1 FJ610152.1 JQ004094.1 JQ004096.1 HQ644234.1 HQ644235.1 HQ644236.1 HQ644237.1 HQ644239.1 HQ644245.1 HQ644246.1 HQ644249.1 HQ644261.1 HQ644274.1 HQ644275.1 HQ644280.1 HQ644281.1 HQ644284.1 HQ644296.1 HQ644297.1 HQ644299.1 AB818692.1 AB818693.1 AB889490.1 AB889491.1 AB889492.1 AB889494.1 LC193821.1 KY549156.1 KY549157.1 KY549158.1 KY549159.1 KY549162.1 KY549163.1 KY549165.1 KY549168.1 KY549169.1 KY549170.1 KY549173.1 KY549174.1 KY549176.1 KY549179.1 KY549181.1 KY549186.1 KY549192.1 KY549195.1 KY549197.1 KY549204.1 KY549217.1 KY549218.1 KY549237.1 KY549238.1 KY549239.1 KY549240.1 KY549243.1 KY549255.1 KY549256.1 KY549259.1 KY549260.1 KY549264.1 KY549278.1 KY549279.1 KY549282.1 KY549283.1 LC368952.1 LC368955.1 LC368957.1 LC368960.1 LC368961.1 LC368962.1 LC368963.1 LC368965.1 LC368969.1 LC368970.1 LC368971.1 LC368972.1 LC368973.1 LC368974.1 LC368975.1 LC368978.1 LC368981.1 LC368983.1 LC368985.1 LC368986.1 LC368988.1 LC368989.1 LC368990.1 LC368991.1 LC368992.1 LC368994.1 LC368995.1 LC368996.1 LC368997.1 MH892050.1 LC456181.1 LC456183.1 LC456185.1 LC456189.1 LC456194.1 LC456196.1 LC456198.1 LC456200.1 LC456630.1 LC456631.1 LC456632.1 LC456634.1 LC456635.1 LC456636.1 LC456625.1 LC456622.1 LC456621.1 LC456620.1 LC456619.1 LC456616.1 LC456613.1 LC456611.1 LC456609.1 LC456606.1 LC511106.1 LC511108.1 LC511109.1 LC511110.1 LC511111.1 MN961211.1 LC644170.1 LC644173.1 LC644174.1 LC644175.1 LC644176.1 LC644177.1 LC644178.1 LC644179.1 LC644188.1 LC647442.1 LC647443.1 LC647445.1 LC647446.1 LC647448.1 LC647449.1 LC647450.1 LC647451.1 LC647452.1 LC647453.1 LC647454.1 LC647455.1 LC647456.1 K02718.1 AF125673.1 AF472509.1 AF536179.1 EU918764.1 HQ644243.1 HQ644244.1 HQ644248.1 HQ644250.1 HQ644251.1 HQ644252.1 HQ644268.1 HQ644291.1 HQ644292.1 HQ644294.1 HQ644295.1 KU298883.1 KY549209.1 KY549210.1 KY549212.1 KY549262.1 KY549263.1 KY549284.1 LC368958.1 LC368987.1 KY994539.1 LC456180.1 LC456188.1 LC456193.1 LC456195.1 LC456626.1 LC456607.1 LC644182.1 LC644185.1 LC647447.1 HQ644265.1 HQ644282.1 HQ644283.1 HQ644286.1 AB818687.1 AB818690.1 LC368959.1 LC647457.1 HQ644272.1 KY549231.1 HQ644287.1 KP212151.1 KP212152.1 KP212156.1 KP212157.1 KP212159.1 LC456624.1 KP212153.1 KP212154.1 HQ644257.1 LC644168.1 LC368982.1 LC647440.1 LC644164.1 JQ004099.1 LC368966.1 KP212155.1 KU298882.1 LC456612.1 LC647444.1 KP212150.1 KP212158.1 KP874717.1 KP874716.1 KP874719.1 KP874718.1 LC511105.1 LC644187.1
JN565303.1	1397	1618	506	100.00	AGACTGAAACACCATGT	CAACGTGTTGCGATTGG	AGACTGAAACACCATGTAGTCAGTATAGTGGTGGAAGTGGGGGTGGTTGCAGTCAGTACAGTAGTGGAAGTGGGGGAGAGGGTGTTAGTGAAAGACACACTATATGCCAAACACCACTTACAAATATTTTAAATGTACTAAAAACTAGTAATGCAAAGGCAGCAATGTTAGCAAAATTTAAAGAGTTATACGGGGTGAGTTTTTCAGAATTAGTAAGACCATTTAAAAGTAATAAATCAACGTGTTGCGATTGG	254	JN565303.1 KY549224.1 KY549225.1 JQ004093.1 JN565302.1 JQ067943.1 JQ067944.1 KY549166.1 KY549200.1 KY549211.1 KY549246.1 KY549247.1 KY549248.1 LC456192.1 LC647441.1 LC368984.1 LC368964.1 LC368976.1 LC456187.1 FJ006723.1 KU684311.1 HM057182.1 LC644181.1 MK484705.1 JQ004092.1 KY549221.1 KY549274.1 KY549275.1 KY549276.1 LC644189.1 HQ644253.1 KY549160.1 KY549164.1 KY549287.1 KY549288.1 HQ644242.1 HQ644270.1 HQ644298.1 AB889493.1 KU684313.1 KU684315.1 KY549167.1 KY549234.1 KY549235.1 KY549236.1 LC456623.1 MN961212.1 MN961214.1 MN961216.1 MN961217.1 MW320358.1 AF472508.1 HQ644238.1 HQ644240.1 HQ644241.1 HQ644255.1 HQ644269.1 HQ644277.1 HQ644290.1 HQ644293.1 KU641509.1 KU684314.1 KY549171.1 KY549206.1 KY549208.1 KY549222.1 KY549223.1 KY549298.1 KY549299.1 LC368953.1 LC368993.1 LC456190.1 LC456618.1 MT783409.1 MN961210.1 MN961213.1 AY686582.1 AY686583.1 JQ004097.1 HQ644254.1 HQ644259.1 HQ644278.1 AB818689.1 KY549172.1 KY549183.1 KY549184.1 KY549185.1 KY549191.1 KY549196.1 KY549207.1 KY549213.1 KY549219.1 KY549220.1 KY549269.1 KY549270.1 KY549292.1 KY549293.1 KY549296.1 KY549297.1 KY549310.1 KY549311.1 KY549318.1 KY549319.1 LC368979.1 LR861899.1 LC644166.1 LC644190.1 AF402678.1 AF536180.1 AY686579.1 AY686580.1 AY686581.1 AY686584.1 EU118173.1 FJ610146.1 FJ610147.1 FJ610148.1 FJ610149.1 FJ610151.1 JQ004095.1 JQ004098.1 HQ644247.1 HQ644256.1 HQ644258.1 HQ644260.1 HQ644262.1 HQ644263.1 HQ644264.1 HQ644266.1 HQ644267.1 HQ644271.1 HQ644273.1 HQ644276.1 HQ644279.1 HQ644285.1 HQ644288.1 HQ644289.1 KC935953.1 AB818688.1 AB818691.1 AB889488.1 AB889489.1 KF954093.1 KF880690.1 KU298880.1 KU298881.1 KU298885.1 KU684312.1 KU684316.1 KU684317.1 NC_001526.4 KY883659.1 KY549161.1 KY549175.1 KY549177.1 KY549178.1 KY549180.1 KY549182.1 KY549187.1 KY549188.1 KY549189.1 KY549190.1 KY549193.1 KY549194.1 KY549198.1 KY549199.1 KY549201.1 KY549202.1 KY549203.1 KY549205.1 KY549214.1 KY549215.1 KY549216.1 KY549226.1 KY549227.1 KY549228.1 KY549229.1 KY549230.1 KY549232.1 KY549233.1 KY549241.1 KY549242.1 KY549244.1 KY549245.1 KY549249.1 KY549250.1 KY549251.1 KY549252.1 KY549253.1 KY549254.1 KY549257.1 KY549258.1 KY549261.1 KY549265.1 KY549266.1 KY549267.1 KY549268.1 KY549271.1 KY549272.1 KY549273.1 KY549277.1 KY549280.1 KY549281.1 KY549285.1 KY549286.1 KY549289.1 KY549290.1 KY549291.1 KY549294.1 KY549295.1 KY549300.1 KY549301.1 KY549302.1 KY549303.1 KY549304.1 KY549305.1 KY549306.1 KY549307.1 KY549308.1 KY549309.1 KY549312.1 KY549313.1 KY549314.1 KY549315.1 KY549316.1 KY549317.1 KY549320.1 KY549321.1 KX947269.1 KX947270.1 KX947271.1 KX947272.1 KX947273.1 KX947274.1 KX947275.1 KX947276.1 KX947277.1 KX947278.1 KX947279.1 KX947280.1 KX947281.1 KX947282.1 KX947283.1 KX947284.1 KX947285.1 LC368954.1 LC368956.1 LC368967.1 LC368968.1 LC368977.1 LC368980.1 LC456182.1 LC456184.1 LC456186.1 LC456191.1 LC456197.1 LC456199.1 LC456201.1 LC456633.1 LC456637.1 LC456629.1 LC456628.1 LC456627.1 LC456617.1 LC456615.1 LC456614.1 LC456610.1 LC456608.1 LC511107.1 LC511112.1 LR861897.1 MT783410.1 MN961215.1 LC644165.1 LC644167.1 LC644169.1 LC644171.1 LC644172.1 LC644180.1 LC644183.1 LC644184.1 LC644186.1 LC644191.1 LC647437.1 LC647438.1 LC647439.1 AF534061.1 FJ610150.1 FJ610152.1 JQ004094.1 JQ004096.1 HQ644234.1 HQ644235.1 HQ644236.1 HQ644237.1 HQ644239.1 HQ644245.1 HQ644246.1 HQ644249.1 HQ644261.1 HQ644274.1 HQ644275.1 HQ644280.1 HQ644281.1 HQ644284.1 HQ644296.1 HQ644297.1 HQ644299.1 AB818692.1 AB818693.1 AB889490.1 AB889491.1 AB889492.1 AB889494.1 LC193821.1 KY549156.1 KY549157.1 KY549158.1 KY549159.1 KY549162.1 KY549163.1 KY549165.1 KY549168.1 KY549169.1 KY549170.1 KY549173.1 KY549174.1 KY549176.1 KY549179.1 KY549181.1 KY549186.1 KY549192.1 KY549195.1 KY549197.1 KY549204.1 KY549217.1 KY549218.1 KY549237.1 KY549238.1 KY549239.1 KY549240.1 KY549243.1 KY549255.1 KY549256.1 KY549259.1 KY549260.1 KY549264.1 KY549278.1 KY549279.1 KY549282.1 KY549283.1 LC368952.1 LC368955.1 LC368957.1 LC368960.1 LC368961.1 LC368962.1 LC368963.1 LC368965.1 LC368969.1 LC368970.1 LC368971.1 LC368972.1 LC368973.1 LC368974.1 LC368975.1 LC368978.1 LC368981.1 LC368983.1 LC368985.1 LC368986.1 LC368988.1 LC368989.1 LC368990.1 LC368991.1 LC368992.1 LC368994.1 LC368995.1 LC368996.1 LC368997.1 MH892050.1 LC456181.1 LC456183.1 LC456185.1 LC456189.1 LC456194.1 LC456196.1 LC456198.1 LC456200.1 LC456630.1 LC456631.1 LC456632.1 LC456634.1 LC456635.1 LC456636.1 LC456625.1 LC456622.1 LC456621.1 LC456620.1 LC456619.1 LC456616.1 LC456613.1 LC456611.1 LC456609.1 LC456606.1 LC511106.1 LC511108.1 LC511109.1 LC511110.1 LC511111.1 MN961211.1 LC644170.1 LC644173.1 LC644174.1 LC644175.1 LC644176.1 LC644177.1 LC644178.1 LC644179.1 LC644188.1 LC647442.1 LC647443.1 LC647445.1 LC647446.1 LC647448.1 LC647449.1 LC647450.1 LC647451.1 LC647452.1 LC647453.1 LC647454.1 LC647455.1 LC647456.1 K02718.1 AF125673.1 AF472509.1 AF536179.1 EU918764.1 HQ644243.1 HQ644244.1 HQ644248.1 HQ644250.1 HQ644251.1 HQ644252.1 HQ644268.1 HQ644291.1 HQ644292.1 HQ644294.1 HQ644295.1 KU298883.1 KY549209.1 KY549210.1 KY549212.1 KY549262.1 KY549263.1 KY549284.1 LC368958.1 LC368987.1 KY994539.1 LC456180.1 LC456188.1 LC456193.1 LC456195.1 LC456626.1 LC456607.1 LC644182.1 LC644185.1 LC647447.1 HQ644265.1 HQ644282.1 HQ644283.1 HQ644286.1 AB818687.1 AB818690.1 LC368959.1 LC647457.1 HQ644272.1 KY549231.1 HQ644287.1 KP212151.1 KP212152.1 KP212156.1 KP212157.1 KP212159.1 LC456624.1 KP212153.1 KP212154.1 HQ644257.1 LC644168.1 LC368982.1 LC647440.1 LC644164.1 JQ004099.1 LC368966.1 KP212155.1 KU298882.1 LC456612.1 LC647444.1 KP212150.1 KP212158.1 KP874717.1 KP874716.1 KP874719.1 KP874718.1 LC511105.1 LC644187.1
JN565303.1	3170	3365	506	100.00	CATGGATATACAGTGGA	TATGGGAAGTTCATGCG	CATGGATATACAGTGGAAGTGCAGTTTGATGGAGACATATGCAATACAATGCATTATACAAACTGGACACATATATATATTTGTGAAGAAGCATCAGTAACTGTGGTAGAGGGTCAAGTTGACTATTATGGTTTATATTATGTTCATGAAGGAATACGAACATATTTTGTGCAGTTTAAAGATGATGCAGAAAAATATAGTAAAAATAAAGTATGGGAAGTTCATGCG	228	JN565303.1 KY549224.1 KY549225.1 JQ004093.1 JN565302.1 JQ067943.1 JQ067944.1 KY549166.1 KY549200.1 KY549211.1 KY549246.1 KY549247.1 KY549248.1 LC456192.1 LC647441.1 LC368984.1 LC368964.1 LC368976.1 LC456187.1 FJ006723.1 KU684311.1 HM057182.1 LC644181.1 MK484705.1 JQ004092.1 KY549221.1 KY549274.1 KY549275.1 KY549276.1 LC644189.1 HQ644253.1 KY549160.1 KY549164.1 KY549287.1 KY549288.1 HQ644242.1 HQ644270.1 HQ644298.1 AB889493.1 KU684313.1 KU684315.1 KY549167.1 KY549234.1 KY549235.1 KY549236.1 LC456623.1 MN961212.1 MN961214.1 MN961216.1 MN961217.1 MW320358.1 AF472508.1 HQ644238.1 HQ644240.1 HQ644241.1 HQ644255.1 HQ644269.1 HQ644277.1 HQ644290.1 HQ644293.1 KU641509.1 KU684314.1 KY549171.1 KY549206.1 KY549208.1 KY549222.1 KY549223.1 KY549298.1 KY549299.1 LC368953.1 LC368993.1 LC456190.1 LC456618.1 MT783409.1 MN961210.1 MN961213.1 AY686582.1 AY686583.1 JQ004097.1 HQ644254.1 HQ644259.1 HQ644278.1 AB818689.1 KY549172.1 KY549183.1 KY549184.1 KY549185.1 KY549191.1 KY549196.1 KY549207.1 KY549213.1 KY549219.1 KY549220.1 KY549269.1 KY549270.1 KY549292.1 KY549293.1 KY549296.1 KY549297.1 KY549310.1 KY549311.1 KY549318.1 KY549319.1 LC368979.1 LR861899.1 LC644166.1 LC644190.1 AF402678.1 AF536180.1 AY686579.1 AY686580.1 AY686581.1 AY686584.1 EU118173.1 FJ610146.1 FJ610147.1 FJ610148.1 FJ610149.1 FJ610151.1 JQ004095.1 JQ004098.1 HQ644247.1 HQ644256.1 HQ644258.1 HQ644260.1 HQ644262.1 HQ644263.1 HQ644264.1 HQ644266.1 HQ644267.1 HQ644271.1 HQ644273.1 HQ644276.1 HQ644279.1 HQ644285.1 HQ644288.1 HQ644289.1 KC935953.1 AB818688.1 AB818691.1 AB889488.1 AB889489.1 KF954093.1 KF880690.1 KU298880.1 KU298881.1 KU298885.1 KU684312.1 KU684316.1 KU684317.1 NC_001526.4 KY883659.1 KY549161.1 KY549175.1 KY549177.1 KY549178.1 KY549180.1 KY549182.1 KY549187.1 KY549188.1 KY549189.1 KY549190.1 KY549193.1 KY549194.1 KY549198.1 KY549199.1 KY549201.1 KY549202.1 KY549203.1 KY549205.1 KY549214.1 KY549215.1 KY549216.1 KY549226.1 KY549227.1 KY549228.1 KY549229.1 KY549230.1 KY549232.1 KY549233.1 KY549241.1 KY549242.1 KY549244.1 KY549245.1 KY549249.1 KY549250.1 KY549251.1 KY549252.1 KY549253.1 KY549254.1 KY549257.1 KY549258.1 KY549261.1 KY549265.1 KY549266.1 KY549267.1 KY549268.1 KY549271.1 KY549272.1 KY549273.1 KY549277.1 KY549280.1 KY549281.1 KY549285.1 KY549286.1 KY549289.1 KY549290.1 KY549291.1 KY549294.1 KY549295.1 KY549300.1 KY549301.1 KY549302.1 KY549303.1 KY549304.1 KY549305.1 KY549306.1 KY549307.1 KY549308.1 KY549309.1 KY549312.1 KY549313.1 KY549314.1 KY549315.1 KY549316.1 KY549317.1 KY549320.1 KY549321.1 KX947269.1 KX947270.1 KX947271.1 KX947272.1 KX947273.1 KX947274.1 KX947275.1 KX947276.1 KX947277.1 KX947278.1 KX947279.1 KX947280.1 KX947281.1 KX947282.1 KX947283.1 KX947284.1 KX947285.1 LC368954.1 LC368956.1 LC368967.1 LC368968.1 LC368977.1 LC368980.1 LC456182.1 LC456184.1 LC456186.1 LC456191.1 LC456197.1 LC456199.1 LC456201.1 LC456633.1 LC456637.1 LC456629.1 LC456628.1 LC456627.1 LC456617.1 LC456615.1 LC456614.1 LC456610.1 LC456608.1 LC511107.1 LC511112.1 LR861897.1 MT783410.1 MN961215.1 LC644165.1 LC644167.1 LC644169.1 LC644171.1 LC644172.1 LC644180.1 LC644183.1 LC644184.1 LC644186.1 LC644191.1 LC647437.1 LC647438.1 LC647439.1 AF534061.1 FJ610150.1 FJ610152.1 JQ004094.1 JQ004096.1 HQ644234.1 HQ644235.1 HQ644236.1 HQ644237.1 HQ644239.1 HQ644245.1 HQ644246.1 HQ644249.1 HQ644261.1 HQ644274.1 HQ644275.1 HQ644280.1 HQ644281.1 HQ644284.1 HQ644296.1 HQ644297.1 HQ644299.1 AB818692.1 AB818693.1 AB889490.1 AB889491.1 AB889492.1 AB889494.1 LC193821.1 KY549156.1 KY549157.1 KY549158.1 KY549159.1 KY549162.1 KY549163.1 KY549165.1 KY549168.1 KY549169.1 KY549170.1 KY549173.1 KY549174.1 KY549176.1 KY549179.1 KY549181.1 KY549186.1 KY549192.1 KY549195.1 KY549197.1 KY549204.1 KY549217.1 KY549218.1 KY549237.1 KY549238.1 KY549239.1 KY549240.1 KY549243.1 KY549255.1 KY549256.1 KY549259.1 KY549260.1 KY549264.1 KY549278.1 KY549279.1 KY549282.1 KY549283.1 LC368952.1 LC368955.1 LC368957.1 LC368960.1 LC368961.1 LC368962.1 LC368963.1 LC368965.1 LC368969.1 LC368970.1 LC368971.1 LC368972.1 LC368973.1 LC368974.1 LC368975.1 LC368978.1 LC368981.1 LC368983.1 LC368985.1 LC368986.1 LC368988.1 LC368989.1 LC368990.1 LC368991.1 LC368992.1 LC368994.1 LC368995.1 LC368996.1 LC368997.1 MH892050.1 LC456181.1 LC456183.1 LC456185.1 LC456189.1 LC456194.1 LC456196.1 LC456198.1 LC456200.1 LC456630.1 LC456631.1 LC456632.1 LC456634.1 LC456635.1 LC456636.1 LC456625.1 LC456622.1 LC456621.1 LC456620.1 LC456619.1 LC456616.1 LC456613.1 LC456611.1 LC456609.1 LC456606.1 LC511106.1 LC511108.1 LC511109.1 LC511110.1 LC511111.1 MN961211.1 LC644170.1 LC644173.1 LC644174.1 LC644175.1 LC644176.1 LC644177.1 LC644178.1 LC644179.1 LC644188.1 LC647442.1 LC647443.1 LC647445.1 LC647446.1 LC647448.1 LC647449.1 LC647450.1 LC647451.1 LC647452.1 LC647453.1 LC647454.1 LC647455.1 LC647456.1 K02718.1 AF125673.1 AF472509.1 AF536179.1 EU918764.1 HQ644243.1 HQ644244.1 HQ644248.1 HQ644250.1 HQ644251.1 HQ644252.1 HQ644268.1 HQ644291.1 HQ644292.1 HQ644294.1 HQ644295.1 KU298883.1 KY549209.1 KY549210.1 KY549212.1 KY549262.1 KY549263.1 KY549284.1 LC368958.1 LC368987.1 KY994539.1 LC456180.1 LC456188.1 LC456193.1 LC456195.1 LC456626.1 LC456607.1 LC644182.1 LC644185.1 LC647447.1 HQ644265.1 HQ644282.1 HQ644283.1 HQ644286.1 AB818687.1 AB818690.1 LC368959.1 LC647457.1 HQ644272.1 KY549231.1 HQ644287.1 KP212151.1 KP212152.1 KP212156.1 KP212157.1 KP212159.1 LC456624.1 KP212153.1 KP212154.1 HQ644257.1 LC644168.1 LC368982.1 LC647440.1 LC644164.1 JQ004099.1 LC368966.1 KP212155.1 KU298882.1 LC456612.1 LC647444.1 KP212150.1 KP212158.1 KP874717.1 KP874716.1 KP874719.1 KP874718.1 LC511105.1 LC644187.1
JN565303.1	2496	2676	506	100.00	AGGTATGTTAGATGATG	GTGGTGTTTACATTTCC	AGGTATGTTAGATGATGCTACAGTGCCCTGTTGGAACTACATAGATGACAATTTAAGAAATGCATTGGATGGAAATTTAGTTTCTATGGATGTAAAGCATAGACCATTGGTACAACTAAAATGCCCTCCATTATTAATTACATCTAACATTAATGCTGGTACAGATTCTAGGTGGCCTTATTTACATAATAGATTGGTGGTGTTTACATTTCC	213	JN565303.1 KY549224.1 KY549225.1 JQ004093.1 JN565302.1 JQ067943.1 JQ067944.1 KY549166.1 KY549200.1 KY549211.1 KY549246.1 KY549247.1 KY549248.1 LC456192.1 LC647441.1 LC368984.1 LC368964.1 LC368976.1 LC456187.1 FJ006723.1 KU684311.1 HM057182.1 LC644181.1 MK484705.1 JQ004092.1 KY549221.1 KY549274.1 KY549275.1 KY549276.1 LC644189.1 HQ644253.1 KY549160.1 KY549164.1 KY549287.1 KY549288.1 HQ644242.1 HQ644270.1 HQ644298.1 AB889493.1 KU684313.1 KU684315.1 KY549167.1 KY549234.1 KY549235.1 KY549236.1 LC456623.1 MN961212.1 MN961214.1 MN961216.1 MN961217.1 MW320358.1 AF472508.1 HQ644238.1 HQ644240.1 HQ644241.1 HQ644255.1 HQ644269.1 HQ644277.1 HQ644290.1 HQ644293.1 KU641509.1 KU684314.1 KY549171.1 KY549206.1 KY549208.1 KY549222.1 KY549223.1 KY549298.1 KY549299.1 LC368953.1 LC368993.1 LC456190.1 LC456618.1 MT783409.1 MN961210.1 MN961213.1 AY686582.1 AY686583.1 JQ004097.1 HQ644254.1 HQ644259.1 HQ644278.1 AB818689.1 KY549172.1 KY549183.1 KY549184.1 KY549185.1 KY549191.1 KY549196.1 KY549207.1 KY549213.1 KY549219.1 KY549220.1 KY549269.1 KY549270.1 KY549292.1 KY549293.1 KY549296.1 KY549297.1 KY549310.1 KY549311.1 KY549318.1 KY549319.1 LC368979.1 LR861899.1 LC644166.1 LC644190.1 AF402678.1 AF536180.1 AY686579.1 AY686580.1 AY686581.1 AY686584.1 EU118173.1 FJ610146.1 FJ610147.1 FJ610148.1 FJ610149.1 FJ610151.1 JQ004095.1 JQ004098.1 HQ644247.1 HQ644256.1 HQ644258.1 HQ644260.1 HQ644262.1 HQ644263.1 HQ644264.1 HQ644266.1 HQ644267.1 HQ644271.1 HQ644273.1 HQ644276.1 HQ644279.1 HQ644285.1 HQ644288.1 HQ644289.1 KC935953.1 AB818688.1 AB818691.1 AB889488.1 AB889489.1 KF954093.1 KF880690.1 KU298880.1 KU298881.1 KU298885.1 KU684312.1 KU684316.1 KU684317.1 NC_001526.4 KY883659.1 KY549161.1 KY549175.1 KY549177.1 KY549178.1 KY549180.1 KY549182.1 KY549187.1 KY549188.1 KY549189.1 KY549190.1 KY549193.1 KY549194.1 KY549198.1 KY549199.1 KY549201.1 KY549202.1 KY549203.1 KY549205.1 KY549214.1 KY549215.1 KY549216.1 KY549226.1 KY549227.1 KY549228.1 KY549229.1 KY549230.1 KY549232.1 KY549233.1 KY549241.1 KY549242.1 KY549244.1 KY549245.1 KY549249.1 KY549250.1 KY549251.1 KY549252.1 KY549253.1 KY549254.1 KY549257.1 KY549258.1 KY549261.1 KY549265.1 KY549266.1 KY549267.1 KY549268.1 KY549271.1 KY549272.1 KY549273.1 KY549277.1 KY549280.1 KY549281.1 KY549285.1 KY549286.1 KY549289.1 KY549290.1 KY549291.1 KY549294.1 KY549295.1 KY549300.1 KY549301.1 KY549302.1 KY549303.1 KY549304.1 KY549305.1 KY549306.1 KY549307.1 KY549308.1 KY549309.1 KY549312.1 KY549313.1 KY549314.1 KY549315.1 KY549316.1 KY549317.1 KY549320.1 KY549321.1 KX947269.1 KX947270.1 KX947271.1 KX947272.1 KX947273.1 KX947274.1 KX947275.1 KX947276.1 KX947277.1 KX947278.1 KX947279.1 KX947280.1 KX947281.1 KX947282.1 KX947283.1 KX947284.1 KX947285.1 LC368954.1 LC368956.1 LC368967.1 LC368968.1 LC368977.1 LC368980.1 LC456182.1 LC456184.1 LC456186.1 LC456191.1 LC456197.1 LC456199.1 LC456201.1 LC456633.1 LC456637.1 LC456629.1 LC456628.1 LC456627.1 LC456617.1 LC456615.1 LC456614.1 LC456610.1 LC456608.1 LC511107.1 LC511112.1 LR861897.1 MT783410.1 MN961215.1 LC644165.1 LC644167.1 LC644169.1 LC644171.1 LC644172.1 LC644180.1 LC644183.1 LC644184.1 LC644186.1 LC644191.1 LC647437.1 LC647438.1 LC647439.1 AF534061.1 FJ610150.1 FJ610152.1 JQ004094.1 JQ004096.1 HQ644234.1 HQ644235.1 HQ644236.1 HQ644237.1 HQ644239.1 HQ644245.1 HQ644246.1 HQ644249.1 HQ644261.1 HQ644274.1 HQ644275.1 HQ644280.1 HQ644281.1 HQ644284.1 HQ644296.1 HQ644297.1 HQ644299.1 AB818692.1 AB818693.1 AB889490.1 AB889491.1 AB889492.1 AB889494.1 LC193821.1 KY549156.1 KY549157.1 KY549158.1 KY549159.1 KY549162.1 KY549163.1 KY549165.1 KY549168.1 KY549169.1 KY549170.1 KY549173.1 KY549174.1 KY549176.1 KY549179.1 KY549181.1 KY549186.1 KY549192.1 KY549195.1 KY549197.1 KY549204.1 KY549217.1 KY549218.1 KY549237.1 KY549238.1 KY549239.1 KY549240.1 KY549243.1 KY549255.1 KY549256.1 KY549259.1 KY549260.1 KY549264.1 KY549278.1 KY549279.1 KY549282.1 KY549283.1 LC368952.1 LC368955.1 LC368957.1 LC368960.1 LC368961.1 LC368962.1 LC368963.1 LC368965.1 LC368969.1 LC368970.1 LC368971.1 LC368972.1 LC368973.1 LC368974.1 LC368975.1 LC368978.1 LC368981.1 LC368983.1 LC368985.1 LC368986.1 LC368988.1 LC368989.1 LC368990.1 LC368991.1 LC368992.1 LC368994.1 LC368995.1 LC368996.1 LC368997.1 MH892050.1 LC456181.1 LC456183.1 LC456185.1 LC456189.1 LC456194.1 LC456196.1 LC456198.1 LC456200.1 LC456630.1 LC456631.1 LC456632.1 LC456634.1 LC456635.1 LC456636.1 LC456625.1 LC456622.1 LC456621.1 LC456620.1 LC456619.1 LC456616.1 LC456613.1 LC456611.1 LC456609.1 LC456606.1 LC511106.1 LC511108.1 LC511109.1 LC511110.1 LC511111.1 MN961211.1 LC644170.1 LC644173.1 LC644174.1 LC644175.1 LC644176.1 LC644177.1 LC644178.1 LC644179.1 LC644188.1 LC647442.1 LC647443.1 LC647445.1 LC647446.1 LC647448.1 LC647449.1 LC647450.1 LC647451.1 LC647452.1 LC647453.1 LC647454.1 LC647455.1 LC647456.1 K02718.1 AF125673.1 AF472509.1 AF536179.1 EU918764.1 HQ644243.1 HQ644244.1 HQ644248.1 HQ644250.1 HQ644251.1 HQ644252.1 HQ644268.1 HQ644291.1 HQ644292.1 HQ644294.1 HQ644295.1 KU298883.1 KY549209.1 KY549210.1 KY549212.1 KY549262.1 KY549263.1 KY549284.1 LC368958.1 LC368987.1 KY994539.1 LC456180.1 LC456188.1 LC456193.1 LC456195.1 LC456626.1 LC456607.1 LC644182.1 LC644185.1 LC647447.1 HQ644265.1 HQ644282.1 HQ644283.1 HQ644286.1 AB818687.1 AB818690.1 LC368959.1 LC647457.1 HQ644272.1 KY549231.1 HQ644287.1 KP212151.1 KP212152.1 KP212156.1 KP212157.1 KP212159.1 LC456624.1 KP212153.1 KP212154.1 HQ644257.1 LC644168.1 LC368982.1 LC647440.1 LC644164.1 JQ004099.1 LC368966.1 KP212155.1 KU298882.1 LC456612.1 LC647444.1 KP212150.1 KP212158.1 KP874717.1 KP874716.1 KP874719.1 KP874718.1 LC511105.1 LC644187.1
JN565303.1	1864	2063	506	100.00	GAGCCTCCAAAATTGCG	TGCACAATTGGCAGACA	GAGCCTCCAAAATTGCGTAGTACAGCAGCAGCATTATATTGGTATAAAACAGGTATATCAAATATTAGTGAAGTGTATGGAGACACGCCAGAATGGATACAAAGACAAACAGTATTACAACATAGTTTTAATGATTGTACATTTGAATTATCACAGATGGTACAATGGGCCTACGATAATGACATAGTAGACGATAGTGAAATTGCATATAAATATGCACAATTGGCAGACA	232	JN565303.1 KY549224.1 KY549225.1 JQ004093.1 JN565302.1 JQ067943.1 JQ067944.1 KY549166.1 KY549200.1 KY549211.1 KY549246.1 KY549247.1 KY549248.1 LC456192.1 LC647441.1 LC368984.1 LC368964.1 LC368976.1 LC456187.1 FJ006723.1 KU684311.1 HM057182.1 LC644181.1 MK484705.1 JQ004092.1 KY549221.1 KY549274.1 KY549275.1 KY549276.1 LC644189.1 HQ644253.1 KY549160.1 KY549164.1 KY549287.1 KY549288.1 HQ644242.1 HQ644270.1 HQ644298.1 AB889493.1 KU684313.1 KU684315.1 KY549167.1 KY549234.1 KY549235.1 KY549236.1 LC456623.1 MN961212.1 MN961214.1 MN961216.1 MN961217.1 MW320358.1 AF472508.1 HQ644238.1 HQ644240.1 HQ644241.1 HQ644255.1 HQ644269.1 HQ644277.1 HQ644290.1 HQ644293.1 KU641509.1 KU684314.1 KY549171.1 KY549206.1 KY549208.1 KY549222.1 KY549223.1 KY549298.1 KY549299.1 LC368953.1 LC368993.1 LC456190.1 LC456618.1 MT783409.1 MN961210.1 MN961213.1 AY686582.1 AY686583.1 JQ004097.1 HQ644254.1 HQ644259.1 HQ644278.1 AB818689.1 KY549172.1 KY549183.1 KY549184.1 KY549185.1 KY549191.1 KY549196.1 KY549207.1 KY549213.1 KY549219.1 KY549220.1 KY549269.1 KY549270.1 KY549292.1 KY549293.1 KY549296.1 KY549297.1 KY549310.1 KY549311.1 KY549318.1 KY549319.1 LC368979.1 LR861899.1 LC644166.1 LC644190.1 AF402678.1 AF536180.1 AY686579.1 AY686580.1 AY686581.1 AY686584.1 EU118173.1 FJ610146.1 FJ610147.1 FJ610148.1 FJ610149.1 FJ610151.1 JQ004095.1 JQ004098.1 HQ644247.1 HQ644256.1 HQ644258.1 HQ644260.1 HQ644262.1 HQ644263.1 HQ644264.1 HQ644266.1 HQ644267.1 HQ644271.1 HQ644273.1 HQ644276.1 HQ644279.1 HQ644285.1 HQ644288.1 HQ644289.1 KC935953.1 AB818688.1 AB818691.1 AB889488.1 AB889489.1 KF954093.1 KF880690.1 KU298880.1 KU298881.1 KU298885.1 KU684312.1 KU684316.1 KU684317.1 NC_001526.4 KY883659.1 KY549161.1 KY549175.1 KY549177.1 KY549178.1 KY549180.1 KY549182.1 KY549187.1 KY549188.1 KY549189.1 KY549190.1 KY549193.1 KY549194.1 KY549198.1 KY549199.1 KY549201.1 KY549202.1 KY549203.1 KY549205.1 KY549214.1 KY549215.1 KY549216.1 KY549226.1 KY549227.1 KY549228.1 KY549229.1 KY549230.1 KY549232.1 KY549233.1 KY549241.1 KY549242.1 KY549244.1 KY549245.1 KY549249.1 KY549250.1 KY549251.1 KY549252.1 KY549253.1 KY549254.1 KY549257.1 KY549258.1 KY549261.1 KY549265.1 KY549266.1 KY549267.1 KY549268.1 KY549271.1 KY549272.1 KY549273.1 KY549277.1 KY549280.1 KY549281.1 KY549285.1 KY549286.1 KY549289.1 KY549290.1 KY549291.1 KY549294.1 KY549295.1 KY549300.1 KY549301.1 KY549302.1 KY549303.1 KY549304.1 KY549305.1 KY549306.1 KY549307.1 KY549308.1 KY549309.1 KY549312.1 KY549313.1 KY549314.1 KY549315.1 KY549316.1 KY549317.1 KY549320.1 KY549321.1 KX947269.1 KX947270.1 KX947271.1 KX947272.1 KX947273.1 KX947274.1 KX947275.1 KX947276.1 KX947277.1 KX947278.1 KX947279.1 KX947280.1 KX947281.1 KX947282.1 KX947283.1 KX947284.1 KX947285.1 LC368954.1 LC368956.1 LC368967.1 LC368968.1 LC368977.1 LC368980.1 LC456182.1 LC456184.1 LC456186.1 LC456191.1 LC456197.1 LC456199.1 LC456201.1 LC456633.1 LC456637.1 LC456629.1 LC456628.1 LC456627.1 LC456617.1 LC456615.1 LC456614.1 LC456610.1 LC456608.1 LC511107.1 LC511112.1 LR861897.1 MT783410.1 MN961215.1 LC644165.1 LC644167.1 LC644169.1 LC644171.1 LC644172.1 LC644180.1 LC644183.1 LC644184.1 LC644186.1 LC644191.1 LC647437.1 LC647438.1 LC647439.1 AF534061.1 FJ610150.1 FJ610152.1 JQ004094.1 JQ004096.1 HQ644234.1 HQ644235.1 HQ644236.1 HQ644237.1 HQ644239.1 HQ644245.1 HQ644246.1 HQ644249.1 HQ644261.1 HQ644274.1 HQ644275.1 HQ644280.1 HQ644281.1 HQ644284.1 HQ644296.1 HQ644297.1 HQ644299.1 AB818692.1 AB818693.1 AB889490.1 AB889491.1 AB889492.1 AB889494.1 LC193821.1 KY549156.1 KY549157.1 KY549158.1 KY549159.1 KY549162.1 KY549163.1 KY549165.1 KY549168.1 KY549169.1 KY549170.1 KY549173.1 KY549174.1 KY549176.1 KY549179.1 KY549181.1 KY549186.1 KY549192.1 KY549195.1 KY549197.1 KY549204.1 KY549217.1 KY549218.1 KY549237.1 KY549238.1 KY549239.1 KY549240.1 KY549243.1 KY549255.1 KY549256.1 KY549259.1 KY549260.1 KY549264.1 KY549278.1 KY549279.1 KY549282.1 KY549283.1 LC368952.1 LC368955.1 LC368957.1 LC368960.1 LC368961.1 LC368962.1 LC368963.1 LC368965.1 LC368969.1 LC368970.1 LC368971.1 LC368972.1 LC368973.1 LC368974.1 LC368975.1 LC368978.1 LC368981.1 LC368983.1 LC368985.1 LC368986.1 LC368988.1 LC368989.1 LC368990.1 LC368991.1 LC368992.1 LC368994.1 LC368995.1 LC368996.1 LC368997.1 MH892050.1 LC456181.1 LC456183.1 LC456185.1 LC456189.1 LC456194.1 LC456196.1 LC456198.1 LC456200.1 LC456630.1 LC456631.1 LC456632.1 LC456634.1 LC456635.1 LC456636.1 LC456625.1 LC456622.1 LC456621.1 LC456620.1 LC456619.1 LC456616.1 LC456613.1 LC456611.1 LC456609.1 LC456606.1 LC511106.1 LC511108.1 LC511109.1 LC511110.1 LC511111.1 MN961211.1 LC644170.1 LC644173.1 LC644174.1 LC644175.1 LC644176.1 LC644177.1 LC644178.1 LC644179.1 LC644188.1 LC647442.1 LC647443.1 LC647445.1 LC647446.1 LC647448.1 LC647449.1 LC647450.1 LC647451.1 LC647452.1 LC647453.1 LC647454.1 LC647455.1 LC647456.1 K02718.1 AF125673.1 AF472509.1 AF536179.1 EU918764.1 HQ644243.1 HQ644244.1 HQ644248.1 HQ644250.1 HQ644251.1 HQ644252.1 HQ644268.1 HQ644291.1 HQ644292.1 HQ644294.1 HQ644295.1 KU298883.1 KY549209.1 KY549210.1 KY549212.1 KY549262.1 KY549263.1 KY549284.1 LC368958.1 LC368987.1 KY994539.1 LC456180.1 LC456188.1 LC456193.1 LC456195.1 LC456626.1 LC456607.1 LC644182.1 LC644185.1 LC647447.1 HQ644265.1 HQ644282.1 HQ644283.1 HQ644286.1 AB818687.1 AB818690.1 LC368959.1 LC647457.1 HQ644272.1 KY549231.1 HQ644287.1 KP212151.1 KP212152.1 KP212156.1 KP212157.1 KP212159.1 LC456624.1 KP212153.1 KP212154.1 HQ644257.1 LC644168.1 LC368982.1 LC647440.1 LC644164.1 JQ004099.1 LC368966.1 KP212155.1 KU298882.1 LC456612.1 LC647444.1 KP212150.1 KP212158.1 KP874717.1 KP874716.1 KP874719.1 KP874718.1 LC511105.1 LC644187.1
JN565303.1	2496	2738	506	100.00	AGGTATGTTAGATGATG	TAATGATAAGAACTGGA	AGGTATGTTAGATGATGCTACAGTGCCCTGTTGGAACTACATAGATGACAATTTAAGAAATGCATTGGATGGAAATTTAGTTTCTATGGATGTAAAGCATAGACCATTGGTACAACTAAAATGCCCTCCATTATTAATTACATCTAACATTAATGCTGGTACAGATTCTAGGTGGCCTTATTTACATAATAGATTGGTGGTGTTTACATTTCCTAATGAGTTTCCATTTGACGAAAACGGAAATCCAGTGTATGAGCTTAATGATAAGAACTGGA	275	JN565303.1 KY549224.1 KY549225.1 JQ004093.1 JN565302.1 JQ067943.1 JQ067944.1 KY549166.1 KY549200.1 KY549211.1 KY549246.1 KY549247.1 KY549248.1 LC456192.1 LC647441.1 LC368984.1 LC368964.1 LC368976.1 LC456187.1 FJ006723.1 KU684311.1 HM057182.1 LC644181.1 MK484705.1 JQ004092.1 KY549221.1 KY549274.1 KY549275.1 KY549276.1 LC644189.1 HQ644253.1 KY549160.1 KY549164.1 KY549287.1 KY549288.1 HQ644242.1 HQ644270.1 HQ644298.1 AB889493.1 KU684313.1 KU684315.1 KY549167.1 KY549234.1 KY549235.1 KY549236.1 LC456623.1 MN961212.1 MN961214.1 MN961216.1 MN961217.1 MW320358.1 AF472508.1 HQ644238.1 HQ644240.1 HQ644241.1 HQ644255.1 HQ644269.1 HQ644277.1 HQ644290.1 HQ644293.1 KU641509.1 KU684314.1 KY549171.1 KY549206.1 KY549208.1 KY549222.1 KY549223.1 KY549298.1 KY549299.1 LC368953.1 LC368993.1 LC456190.1 LC456618.1 MT783409.1 MN961210.1 MN961213.1 AY686582.1 AY686583.1 JQ004097.1 HQ644254.1 HQ644259.1 HQ644278.1 AB818689.1 KY549172.1 KY549183.1 KY549184.1 KY549185.1 KY549191.1 KY549196.1 KY549207.1 KY549213.1 KY549219.1 KY549220.1 KY549269.1 KY549270.1 KY549292.1 KY549293.1 KY549296.1 KY549297.1 KY549310.1 KY549311.1 KY549318.1 KY549319.1 LC368979.1 LR861899.1 LC644166.1 LC644190.1 AF402678.1 AF536180.1 AY686579.1 AY686580.1 AY686581.1 AY686584.1 EU118173.1 FJ610146.1 FJ610147.1 FJ610148.1 FJ610149.1 FJ610151.1 JQ004095.1 JQ004098.1 HQ644247.1 HQ644256.1 HQ644258.1 HQ644260.1 HQ644262.1 HQ644263.1 HQ644264.1 HQ644266.1 HQ644267.1 HQ644271.1 HQ644273.1 HQ644276.1 HQ644279.1 HQ644285.1 HQ644288.1 HQ644289.1 KC935953.1 AB818688.1 AB818691.1 AB889488.1 AB889489.1 KF954093.1 KF880690.1 KU298880.1 KU298881.1 KU298885.1 KU684312.1 KU684316.1 KU684317.1 NC_001526.4 KY883659.1 KY549161.1 KY549175.1 KY549177.1 KY549178.1 KY549180.1 KY549182.1 KY549187.1 KY549188.1 KY549189.1 KY549190.1 KY549193.1 KY549194.1 KY549198.1 KY549199.1 KY549201.1 KY549202.1 KY549203.1 KY549205.1 KY549214.1 KY549215.1 KY549216.1 KY549226.1 KY549227.1 KY549228.1 KY549229.1 KY549230.1 KY549232.1 KY549233.1 KY549241.1 KY549242.1 KY549244.1 KY549245.1 KY549249.1 KY549250.1 KY549251.1 KY549252.1 KY549253.1 KY549254.1 KY549257.1 KY549258.1 KY549261.1 KY549265.1 KY549266.1 KY549267.1 KY549268.1 KY549271.1 KY549272.1 KY549273.1 KY549277.1 KY549280.1 KY549281.1 KY549285.1 KY549286.1 KY549289.1 KY549290.1 KY549291.1 KY549294.1 KY549295.1 KY549300.1 KY549301.1 KY549302.1 KY549303.1 KY549304.1 KY549305.1 KY549306.1 KY549307.1 KY549308.1 KY549309.1 KY549312.1 KY549313.1 KY549314.1 KY549315.1 KY549316.1 KY549317.1 KY549320.1 KY549321.1 KX947269.1 KX947270.1 KX947271.1 KX947272.1 KX947273.1 KX947274.1 KX947275.1 KX947276.1 KX947277.1 KX947278.1 KX947279.1 KX947280.1 KX947281.1 KX947282.1 KX947283.1 KX947284.1 KX947285.1 LC368954.1 LC368956.1 LC368967.1 LC368968.1 LC368977.1 LC368980.1 LC456182.1 LC456184.1 LC456186.1 LC456191.1 LC456197.1 LC456199.1 LC456201.1 LC456633.1 LC456637.1 LC456629.1 LC456628.1 LC456627.1 LC456617.1 LC456615.1 LC456614.1 LC456610.1 LC456608.1 LC511107.1 LC511112.1 LR861897.1 MT783410.1 MN961215.1 LC644165.1 LC644167.1 LC644169.1 LC644171.1 LC644172.1 LC644180.1 LC644183.1 LC644184.1 LC644186.1 LC644191.1 LC647437.1 LC647438.1 LC647439.1 AF534061.1 FJ610150.1 FJ610152.1 JQ004094.1 JQ004096.1 HQ644234.1 HQ644235.1 HQ644236.1 HQ644237.1 HQ644239.1 HQ644245.1 HQ644246.1 HQ644249.1 HQ644261.1 HQ644274.1 HQ644275.1 HQ644280.1 HQ644281.1 HQ644284.1 HQ644296.1 HQ644297.1 HQ644299.1 AB818692.1 AB818693.1 AB889490.1 AB889491.1 AB889492.1 AB889494.1 LC193821.1 KY549156.1 KY549157.1 KY549158.1 KY549159.1 KY549162.1 KY549163.1 KY549165.1 KY549168.1 KY549169.1 KY549170.1 KY549173.1 KY549174.1 KY549176.1 KY549179.1 KY549181.1 KY549186.1 KY549192.1 KY549195.1 KY549197.1 KY549204.1 KY549217.1 KY549218.1 KY549237.1 KY549238.1 KY549239.1 KY549240.1 KY549243.1 KY549255.1 KY549256.1 KY549259.1 KY549260.1 KY549264.1 KY549278.1 KY549279.1 KY549282.1 KY549283.1 LC368952.1 LC368955.1 LC368957.1 LC368960.1 LC368961.1 LC368962.1 LC368963.1 LC368965.1 LC368969.1 LC368970.1 LC368971.1 LC368972.1 LC368973.1 LC368974.1 LC368975.1 LC368978.1 LC368981.1 LC368983.1 LC368985.1 LC368986.1 LC368988.1 LC368989.1 LC368990.1 LC368991.1 LC368992.1 LC368994.1 LC368995.1 LC368996.1 LC368997.1 MH892050.1 LC456181.1 LC456183.1 LC456185.1 LC456189.1 LC456194.1 LC456196.1 LC456198.1 LC456200.1 LC456630.1 LC456631.1 LC456632.1 LC456634.1 LC456635.1 LC456636.1 LC456625.1 LC456622.1 LC456621.1 LC456620.1 LC456619.1 LC456616.1 LC456613.1 LC456611.1 LC456609.1 LC456606.1 LC511106.1 LC511108.1 LC511109.1 LC511110.1 LC511111.1 MN961211.1 LC644170.1 LC644173.1 LC644174.1 LC644175.1 LC644176.1 LC644177.1 LC644178.1 LC644179.1 LC644188.1 LC647442.1 LC647443.1 LC647445.1 LC647446.1 LC647448.1 LC647449.1 LC647450.1 LC647451.1 LC647452.1 LC647453.1 LC647454.1 LC647455.1 LC647456.1 K02718.1 AF125673.1 AF472509.1 AF536179.1 EU918764.1 HQ644243.1 HQ644244.1 HQ644248.1 HQ644250.1 HQ644251.1 HQ644252.1 HQ644268.1 HQ644291.1 HQ644292.1 HQ644294.1 HQ644295.1 KU298883.1 KY549209.1 KY549210.1 KY549212.1 KY549262.1 KY549263.1 KY549284.1 LC368958.1 LC368987.1 KY994539.1 LC456180.1 LC456188.1 LC456193.1 LC456195.1 LC456626.1 LC456607.1 LC644182.1 LC644185.1 LC647447.1 HQ644265.1 HQ644282.1 HQ644283.1 HQ644286.1 AB818687.1 AB818690.1 LC368959.1 LC647457.1 HQ644272.1 KY549231.1 HQ644287.1 KP212151.1 KP212152.1 KP212156.1 KP212157.1 KP212159.1 LC456624.1 KP212153.1 KP212154.1 HQ644257.1 LC644168.1 LC368982.1 LC647440.1 LC644164.1 JQ004099.1 LC368966.1 KP212155.1 KU298882.1 LC456612.1 LC647444.1 KP212150.1 KP212158.1 KP874717.1 KP874716.1 KP874719.1 KP874718.1 LC511105.1 LC644187.1
JN565303.1	395	494	506	100.00	AACAAACCGTTGTGTGA	GGTGGACCGGTCGATGT	AACAAACCGTTGTGTGATTTGTTAATTAGGTGTATTAACTGTCAAAAGCCACTGTGTCCTGAAGAAAAGCAAAGACATCTGGACAAAAAGCAAAGATTCCATAATATAAGGGGTCGGTGGACCGGTCGATGT	132	JN565303.1 KY549224.1 KY549225.1 JQ004093.1 JN565302.1 JQ067943.1 JQ067944.1 KY549166.1 KY549200.1 KY549211.1 KY549246.1 KY549247.1 KY549248.1 LC456192.1 LC647441.1 LC368984.1 LC368964.1 LC368976.1 LC456187.1 FJ006723.1 KU684311.1 HM057182.1 LC644181.1 MK484705.1 JQ004092.1 KY549221.1 KY549274.1 KY549275.1 KY549276.1 LC644189.1 HQ644253.1 KY549160.1 KY549164.1 KY549287.1 KY549288.1 HQ644242.1 HQ644270.1 HQ644298.1 AB889493.1 KU684313.1 KU684315.1 KY549167.1 KY549234.1 KY549235.1 KY549236.1 LC456623.1 MN961212.1 MN961214.1 MN961216.1 MN961217.1 MW320358.1 AF472508.1 HQ644238.1 HQ644240.1 HQ644241.1 HQ644255.1 HQ644269.1 HQ644277.1 HQ644290.1 HQ644293.1 KU641509.1 KU684314.1 KY549171.1 KY549206.1 KY549208.1 KY549222.1 KY549223.1 KY549298.1 KY549299.1 LC368953.1 LC368993.1 LC456190.1 LC456618.1 MT783409.1 MN961210.1 MN961213.1 AY686582.1 AY686583.1 JQ004097.1 HQ644254.1 HQ644259.1 HQ644278.1 AB818689.1 KY549172.1 KY549183.1 KY549184.1 KY549185.1 KY549191.1 KY549196.1 KY549207.1 KY549213.1 KY549219.1 KY549220.1 KY549269.1 KY549270.1 KY549292.1 KY549293.1 KY549296.1 KY549297.1 KY549310.1 KY549311.1 KY549318.1 KY549319.1 LC368979.1 LR861899.1 LC644166.1 LC644190.1 AF402678.1 AF536180.1 AY686579.1 AY686580.1 AY686581.1 AY686584.1 EU118173.1 FJ610146.1 FJ610147.1 FJ610148.1 FJ610149.1 FJ610151.1 JQ004095.1 JQ004098.1 HQ644247.1 HQ644256.1 HQ644258.1 HQ644260.1 HQ644262.1 HQ644263.1 HQ644264.1 HQ644266.1 HQ644267.1 HQ644271.1 HQ644273.1 HQ644276.1 HQ644279.1 HQ644285.1 HQ644288.1 HQ644289.1 KC935953.1 AB818688.1 AB818691.1 AB889488.1 AB889489.1 KF954093.1 KF880690.1 KU298880.1 KU298881.1 KU298885.1 KU684312.1 KU684316.1 KU684317.1 NC_001526.4 KY883659.1 KY549161.1 KY549175.1 KY549177.1 KY549178.1 KY549180.1 KY549182.1 KY549187.1 KY549188.1 KY549189.1 KY549190.1 KY549193.1 KY549194.1 KY549198.1 KY549199.1 KY549201.1 KY549202.1 KY549203.1 KY549205.1 KY549214.1 KY549215.1 KY549216.1 KY549226.1 KY549227.1 KY549228.1 KY549229.1 KY549230.1 KY549232.1 KY549233.1 KY549241.1 KY549242.1 KY549244.1 KY549245.1 KY549249.1 KY549250.1 KY549251.1 KY549252.1 KY549253.1 KY549254.1 KY549257.1 KY549258.1 KY549261.1 KY549265.1 KY549266.1 KY549267.1 KY549268.1 KY549271.1 KY549272.1 KY549273.1 KY549277.1 KY549280.1 KY549281.1 KY549285.1 KY549286.1 KY549289.1 KY549290.1 KY549291.1 KY549294.1 KY549295.1 KY549300.1 KY549301.1 KY549302.1 KY549303.1 KY549304.1 KY549305.1 KY549306.1 KY549307.1 KY549308.1 KY549309.1 KY549312.1 KY549313.1 KY549314.1 KY549315.1 KY549316.1 KY549317.1 KY549320.1 KY549321.1 KX947269.1 KX947270.1 KX947271.1 KX947272.1 KX947273.1 KX947274.1 KX947275.1 KX947276.1 KX947277.1 KX947278.1 KX947279.1 KX947280.1 KX947281.1 KX947282.1 KX947283.1 KX947284.1 KX947285.1 LC368954.1 LC368956.1 LC368967.1 LC368968.1 LC368977.1 LC368980.1 LC456182.1 LC456184.1 LC456186.1 LC456191.1 LC456197.1 LC456199.1 LC456201.1 LC456633.1 LC456637.1 LC456629.1 LC456628.1 LC456627.1 LC456617.1 LC456615.1 LC456614.1 LC456610.1 LC456608.1 LC511107.1 LC511112.1 LR861897.1 MT783410.1 MN961215.1 LC644165.1 LC644167.1 LC644169.1 LC644171.1 LC644172.1 LC644180.1 LC644183.1 LC644184.1 LC644186.1 LC644191.1 LC647437.1 LC647438.1 LC647439.1 AF534061.1 FJ610150.1 FJ610152.1 JQ004094.1 JQ004096.1 HQ644234.1 HQ644235.1 HQ644236.1 HQ644237.1 HQ644239.1 HQ644245.1 HQ644246.1 HQ644249.1 HQ644261.1 HQ644274.1 HQ644275.1 HQ644280.1 HQ644281.1 HQ644284.1 HQ644296.1 HQ644297.1 HQ644299.1 AB818692.1 AB818693.1 AB889490.1 AB889491.1 AB889492.1 AB889494.1 LC193821.1 KY549156.1 KY549157.1 KY549158.1 KY549159.1 KY549162.1 KY549163.1 KY549165.1 KY549168.1 KY549169.1 KY549170.1 KY549173.1 KY549174.1 KY549176.1 KY549179.1 KY549181.1 KY549186.1 KY549192.1 KY549195.1 KY549197.1 KY549204.1 KY549217.1 KY549218.1 KY549237.1 KY549238.1 KY549239.1 KY549240.1 KY549243.1 KY549255.1 KY549256.1 KY549259.1 KY549260.1 KY549264.1 KY549278.1 KY549279.1 KY549282.1 KY549283.1 LC368952.1 LC368955.1 LC368957.1 LC368960.1 LC368961.1 LC368962.1 LC368963.1 LC368965.1 LC368969.1 LC368970.1 LC368971.1 LC368972.1 LC368973.1 LC368974.1 LC368975.1 LC368978.1 LC368981.1 LC368983.1 LC368985.1 LC368986.1 LC368988.1 LC368989.1 LC368990.1 LC368991.1 LC368992.1 LC368994.1 LC368995.1 LC368996.1 LC368997.1 MH892050.1 LC456181.1 LC456183.1 LC456185.1 LC456189.1 LC456194.1 LC456196.1 LC456198.1 LC456200.1 LC456630.1 LC456631.1 LC456632.1 LC456634.1 LC456635.1 LC456636.1 LC456625.1 LC456622.1 LC456621.1 LC456620.1 LC456619.1 LC456616.1 LC456613.1 LC456611.1 LC456609.1 LC456606.1 LC511106.1 LC511108.1 LC511109.1 LC511110.1 LC511111.1 MN961211.1 LC644170.1 LC644173.1 LC644174.1 LC644175.1 LC644176.1 LC644177.1 LC644178.1 LC644179.1 LC644188.1 LC647442.1 LC647443.1 LC647445.1 LC647446.1 LC647448.1 LC647449.1 LC647450.1 LC647451.1 LC647452.1 LC647453.1 LC647454.1 LC647455.1 LC647456.1 K02718.1 AF125673.1 AF472509.1 AF536179.1 EU918764.1 HQ644243.1 HQ644244.1 HQ644248.1 HQ644250.1 HQ644251.1 HQ644252.1 HQ644268.1 HQ644291.1 HQ644292.1 HQ644294.1 HQ644295.1 KU298883.1 KY549209.1 KY549210.1 KY549212.1 KY549262.1 KY549263.1 KY549284.1 LC368958.1 LC368987.1 KY994539.1 LC456180.1 LC456188.1 LC456193.1 LC456195.1 LC456626.1 LC456607.1 LC644182.1 LC644185.1 LC647447.1 HQ644265.1 HQ644282.1 HQ644283.1 HQ644286.1 AB818687.1 AB818690.1 LC368959.1 LC647457.1 HQ644272.1 KY549231.1 HQ644287.1 KP212151.1 KP212152.1 KP212156.1 KP212157.1 KP212159.1 LC456624.1 KP212153.1 KP212154.1 HQ644257.1 LC644168.1 LC368982.1 LC647440.1 LC644164.1 JQ004099.1 LC368966.1 KP212155.1 KU298882.1 LC456612.1 LC647444.1 KP212150.1 KP212158.1 KP874717.1 KP874716.1 KP874719.1 KP874718.1 LC511105.1 LC644187.1
JN565303.1	2047	2236	506	100.00	ATAGTAGACGATAGTGA	GTGATTGGAAGCAAATT	ATAGTAGACGATAGTGAAATTGCATATAAATATGCACAATTGGCAGACACTAATAGTAATGCAAGTGCCTTTCTAAAAAGTAATTCACAGGCAAAAATTGTAAAGGATTGTGCAACAATGTGTAGACATTATAAACGAGCAGAAAAAAAACAAATGAGTATGAGTCAATGGATAAAATATAGATGTGATAGGGTAGATGATGGAGGTGATTGGAAGCAAATT	222	JN565303.1 KY549224.1 KY549225.1 JQ004093.1 JN565302.1 JQ067943.1 JQ067944.1 KY549166.1 KY549200.1 KY549211.1 KY549246.1 KY549247.1 KY549248.1 LC456192.1 LC647441.1 LC368984.1 LC368964.1 LC368976.1 LC456187.1 FJ006723.1 KU684311.1 HM057182.1 LC644181.1 MK484705.1 JQ004092.1 KY549221.1 KY549274.1 KY549275.1 KY549276.1 LC644189.1 HQ644253.1 KY549160.1 KY549164.1 KY549287.1 KY549288.1 HQ644242.1 HQ644270.1 HQ644298.1 AB889493.1 KU684313.1 KU684315.1 KY549167.1 KY549234.1 KY549235.1 KY549236.1 LC456623.1 MN961212.1 MN961214.1 MN961216.1 MN961217.1 MW320358.1 AF472508.1 HQ644238.1 HQ644240.1 HQ644241.1 HQ644255.1 HQ644269.1 HQ644277.1 HQ644290.1 HQ644293.1 KU641509.1 KU684314.1 KY549171.1 KY549206.1 KY549208.1 KY549222.1 KY549223.1 KY549298.1 KY549299.1 LC368953.1 LC368993.1 LC456190.1 LC456618.1 MT783409.1 MN961210.1 MN961213.1 AY686582.1 AY686583.1 JQ004097.1 HQ644254.1 HQ644259.1 HQ644278.1 AB818689.1 KY549172.1 KY549183.1 KY549184.1 KY549185.1 KY549191.1 KY549196.1 KY549207.1 KY549213.1 KY549219.1 KY549220.1 KY549269.1 KY549270.1 KY549292.1 KY549293.1 KY549296.1 KY549297.1 KY549310.1 KY549311.1 KY549318.1 KY549319.1 LC368979.1 LR861899.1 LC644166.1 LC644190.1 AF402678.1 AF536180.1 AY686579.1 AY686580.1 AY686581.1 AY686584.1 EU118173.1 FJ610146.1 FJ610147.1 FJ610148.1 FJ610149.1 FJ610151.1 JQ004095.1 JQ004098.1 HQ644247.1 HQ644256.1 HQ644258.1 HQ644260.1 HQ644262.1 HQ644263.1 HQ644264.1 HQ644266.1 HQ644267.1 HQ644271.1 HQ644273.1 HQ644276.1 HQ644279.1 HQ644285.1 HQ644288.1 HQ644289.1 KC935953.1 AB818688.1 AB818691.1 AB889488.1 AB889489.1 KF954093.1 KF880690.1 KU298880.1 KU298881.1 KU298885.1 KU684312.1 KU684316.1 KU684317.1 NC_001526.4 KY883659.1 KY549161.1 KY549175.1 KY549177.1 KY549178.1 KY549180.1 KY549182.1 KY549187.1 KY549188.1 KY549189.1 KY549190.1 KY549193.1 KY549194.1 KY549198.1 KY549199.1 KY549201.1 KY549202.1 KY549203.1 KY549205.1 KY549214.1 KY549215.1 KY549216.1 KY549226.1 KY549227.1 KY549228.1 KY549229.1 KY549230.1 KY549232.1 KY549233.1 KY549241.1 KY549242.1 KY549244.1 KY549245.1 KY549249.1 KY549250.1 KY549251.1 KY549252.1 KY549253.1 KY549254.1 KY549257.1 KY549258.1 KY549261.1 KY549265.1 KY549266.1 KY549267.1 KY549268.1 KY549271.1 KY549272.1 KY549273.1 KY549277.1 KY549280.1 KY549281.1 KY549285.1 KY549286.1 KY549289.1 KY549290.1 KY549291.1 KY549294.1 KY549295.1 KY549300.1 KY549301.1 KY549302.1 KY549303.1 KY549304.1 KY549305.1 KY549306.1 KY549307.1 KY549308.1 KY549309.1 KY549312.1 KY549313.1 KY549314.1 KY549315.1 KY549316.1 KY549317.1 KY549320.1 KY549321.1 KX947269.1 KX947270.1 KX947271.1 KX947272.1 KX947273.1 KX947274.1 KX947275.1 KX947276.1 KX947277.1 KX947278.1 KX947279.1 KX947280.1 KX947281.1 KX947282.1 KX947283.1 KX947284.1 KX947285.1 LC368954.1 LC368956.1 LC368967.1 LC368968.1 LC368977.1 LC368980.1 LC456182.1 LC456184.1 LC456186.1 LC456191.1 LC456197.1 LC456199.1 LC456201.1 LC456633.1 LC456637.1 LC456629.1 LC456628.1 LC456627.1 LC456617.1 LC456615.1 LC456614.1 LC456610.1 LC456608.1 LC511107.1 LC511112.1 LR861897.1 MT783410.1 MN961215.1 LC644165.1 LC644167.1 LC644169.1 LC644171.1 LC644172.1 LC644180.1 LC644183.1 LC644184.1 LC644186.1 LC644191.1 LC647437.1 LC647438.1 LC647439.1 AF534061.1 FJ610150.1 FJ610152.1 JQ004094.1 JQ004096.1 HQ644234.1 HQ644235.1 HQ644236.1 HQ644237.1 HQ644239.1 HQ644245.1 HQ644246.1 HQ644249.1 HQ644261.1 HQ644274.1 HQ644275.1 HQ644280.1 HQ644281.1 HQ644284.1 HQ644296.1 HQ644297.1 HQ644299.1 AB818692.1 AB818693.1 AB889490.1 AB889491.1 AB889492.1 AB889494.1 LC193821.1 KY549156.1 KY549157.1 KY549158.1 KY549159.1 KY549162.1 KY549163.1 KY549165.1 KY549168.1 KY549169.1 KY549170.1 KY549173.1 KY549174.1 KY549176.1 KY549179.1 KY549181.1 KY549186.1 KY549192.1 KY549195.1 KY549197.1 KY549204.1 KY549217.1 KY549218.1 KY549237.1 KY549238.1 KY549239.1 KY549240.1 KY549243.1 KY549255.1 KY549256.1 KY549259.1 KY549260.1 KY549264.1 KY549278.1 KY549279.1 KY549282.1 KY549283.1 LC368952.1 LC368955.1 LC368957.1 LC368960.1 LC368961.1 LC368962.1 LC368963.1 LC368965.1 LC368969.1 LC368970.1 LC368971.1 LC368972.1 LC368973.1 LC368974.1 LC368975.1 LC368978.1 LC368981.1 LC368983.1 LC368985.1 LC368986.1 LC368988.1 LC368989.1 LC368990.1 LC368991.1 LC368992.1 LC368994.1 LC368995.1 LC368996.1 LC368997.1 MH892050.1 LC456181.1 LC456183.1 LC456185.1 LC456189.1 LC456194.1 LC456196.1 LC456198.1 LC456200.1 LC456630.1 LC456631.1 LC456632.1 LC456634.1 LC456635.1 LC456636.1 LC456625.1 LC456622.1 LC456621.1 LC456620.1 LC456619.1 LC456616.1 LC456613.1 LC456611.1 LC456609.1 LC456606.1 LC511106.1 LC511108.1 LC511109.1 LC511110.1 LC511111.1 MN961211.1 LC644170.1 LC644173.1 LC644174.1 LC644175.1 LC644176.1 LC644177.1 LC644178.1 LC644179.1 LC644188.1 LC647442.1 LC647443.1 LC647445.1 LC647446.1 LC647448.1 LC647449.1 LC647450.1 LC647451.1 LC647452.1 LC647453.1 LC647454.1 LC647455.1 LC647456.1 K02718.1 AF125673.1 AF472509.1 AF536179.1 EU918764.1 HQ644243.1 HQ644244.1 HQ644248.1 HQ644250.1 HQ644251.1 HQ644252.1 HQ644268.1 HQ644291.1 HQ644292.1 HQ644294.1 HQ644295.1 KU298883.1 KY549209.1 KY549210.1 KY549212.1 KY549262.1 KY549263.1 KY549284.1 LC368958.1 LC368987.1 KY994539.1 LC456180.1 LC456188.1 LC456193.1 LC456195.1 LC456626.1 LC456607.1 LC644182.1 LC644185.1 LC647447.1 HQ644265.1 HQ644282.1 HQ644283.1 HQ644286.1 AB818687.1 AB818690.1 LC368959.1 LC647457.1 HQ644272.1 KY549231.1 HQ644287.1 KP212151.1 KP212152.1 KP212156.1 KP212157.1 KP212159.1 LC456624.1 KP212153.1 KP212154.1 HQ644257.1 LC644168.1 LC368982.1 LC647440.1 LC644164.1 JQ004099.1 LC368966.1 KP212155.1 KU298882.1 LC456612.1 LC647444.1 KP212150.1 KP212158.1 KP874717.1 KP874716.1 KP874719.1 KP874718.1 LC511105.1 LC644187.1
JN565303.1	428	599	506	100.00	ATTAACTGTCAAAAGCC	AGATTTGCAACCAGAGA	ATTAACTGTCAAAAGCCACTGTGTCCTGAAGAAAAGCAAAGACATCTGGACAAAAAGCAAAGATTCCATAATATAAGGGGTCGGTGGACCGGTCGATGTATGTCTTGTTGCAGATCATCAAGAACACGTAGAGAAACCCAGCTGTAATCATGCATGGAGATACACCTACATTGCATGAATATATGTTAGATTTGCAACCAGAGA	204	JN565303.1 KY549224.1 KY549225.1 JQ004093.1 JN565302.1 JQ067943.1 JQ067944.1 KY549166.1 KY549200.1 KY549211.1 KY549246.1 KY549247.1 KY549248.1 LC456192.1 LC647441.1 LC368984.1 LC368964.1 LC368976.1 LC456187.1 FJ006723.1 KU684311.1 HM057182.1 LC644181.1 MK484705.1 JQ004092.1 KY549221.1 KY549274.1 KY549275.1 KY549276.1 LC644189.1 HQ644253.1 KY549160.1 KY549164.1 KY549287.1 KY549288.1 HQ644242.1 HQ644270.1 HQ644298.1 AB889493.1 KU684313.1 KU684315.1 KY549167.1 KY549234.1 KY549235.1 KY549236.1 LC456623.1 MN961212.1 MN961214.1 MN961216.1 MN961217.1 MW320358.1 AF472508.1 HQ644238.1 HQ644240.1 HQ644241.1 HQ644255.1 HQ644269.1 HQ644277.1 HQ644290.1 HQ644293.1 KU641509.1 KU684314.1 KY549171.1 KY549206.1 KY549208.1 KY549222.1 KY549223.1 KY549298.1 KY549299.1 LC368953.1 LC368993.1 LC456190.1 LC456618.1 MT783409.1 MN961210.1 MN961213.1 AY686582.1 AY686583.1 JQ004097.1 HQ644254.1 HQ644259.1 HQ644278.1 AB818689.1 KY549172.1 KY549183.1 KY549184.1 KY549185.1 KY549191.1 KY549196.1 KY549207.1 KY549213.1 KY549219.1 KY549220.1 KY549269.1 KY549270.1 KY549292.1 KY549293.1 KY549296.1 KY549297.1 KY549310.1 KY549311.1 KY549318.1 KY549319.1 LC368979.1 LR861899.1 LC644166.1 LC644190.1 AF402678.1 AF536180.1 AY686579.1 AY686580.1 AY686581.1 AY686584.1 EU118173.1 FJ610146.1 FJ610147.1 FJ610148.1 FJ610149.1 FJ610151.1 JQ004095.1 JQ004098.1 HQ644247.1 HQ644256.1 HQ644258.1 HQ644260.1 HQ644262.1 HQ644263.1 HQ644264.1 HQ644266.1 HQ644267.1 HQ644271.1 HQ644273.1 HQ644276.1 HQ644279.1 HQ644285.1 HQ644288.1 HQ644289.1 KC935953.1 AB818688.1 AB818691.1 AB889488.1 AB889489.1 KF954093.1 KF880690.1 KU298880.1 KU298881.1 KU298885.1 KU684312.1 KU684316.1 KU684317.1 NC_001526.4 KY883659.1 KY549161.1 KY549175.1 KY549177.1 KY549178.1 KY549180.1 KY549182.1 KY549187.1 KY549188.1 KY549189.1 KY549190.1 KY549193.1 KY549194.1 KY549198.1 KY549199.1 KY549201.1 KY549202.1 KY549203.1 KY549205.1 KY549214.1 KY549215.1 KY549216.1 KY549226.1 KY549227.1 KY549228.1 KY549229.1 KY549230.1 KY549232.1 KY549233.1 KY549241.1 KY549242.1 KY549244.1 KY549245.1 KY549249.1 KY549250.1 KY549251.1 KY549252.1 KY549253.1 KY549254.1 KY549257.1 KY549258.1 KY549261.1 KY549265.1 KY549266.1 KY549267.1 KY549268.1 KY549271.1 KY549272.1 KY549273.1 KY549277.1 KY549280.1 KY549281.1 KY549285.1 KY549286.1 KY549289.1 KY549290.1 KY549291.1 KY549294.1 KY549295.1 KY549300.1 KY549301.1 KY549302.1 KY549303.1 KY549304.1 KY549305.1 KY549306.1 KY549307.1 KY549308.1 KY549309.1 KY549312.1 KY549313.1 KY549314.1 KY549315.1 KY549316.1 KY549317.1 KY549320.1 KY549321.1 KX947269.1 KX947270.1 KX947271.1 KX947272.1 KX947273.1 KX947274.1 KX947275.1 KX947276.1 KX947277.1 KX947278.1 KX947279.1 KX947280.1 KX947281.1 KX947282.1 KX947283.1 KX947284.1 KX947285.1 LC368954.1 LC368956.1 LC368967.1 LC368968.1 LC368977.1 LC368980.1 LC456182.1 LC456184.1 LC456186.1 LC456191.1 LC456197.1 LC456199.1 LC456201.1 LC456633.1 LC456637.1 LC456629.1 LC456628.1 LC456627.1 LC456617.1 LC456615.1 LC456614.1 LC456610.1 LC456608.1 LC511107.1 LC511112.1 LR861897.1 MT783410.1 MN961215.1 LC644165.1 LC644167.1 LC644169.1 LC644171.1 LC644172.1 LC644180.1 LC644183.1 LC644184.1 LC644186.1 LC644191.1 LC647437.1 LC647438.1 LC647439.1 AF534061.1 FJ610150.1 FJ610152.1 JQ004094.1 JQ004096.1 HQ644234.1 HQ644235.1 HQ644236.1 HQ644237.1 HQ644239.1 HQ644245.1 HQ644246.1 HQ644249.1 HQ644261.1 HQ644274.1 HQ644275.1 HQ644280.1 HQ644281.1 HQ644284.1 HQ644296.1 HQ644297.1 HQ644299.1 AB818692.1 AB818693.1 AB889490.1 AB889491.1 AB889492.1 AB889494.1 LC193821.1 KY549156.1 KY549157.1 KY549158.1 KY549159.1 KY549162.1 KY549163.1 KY549165.1 KY549168.1 KY549169.1 KY549170.1 KY549173.1 KY549174.1 KY549176.1 KY549179.1 KY549181.1 KY549186.1 KY549192.1 KY549195.1 KY549197.1 KY549204.1 KY549217.1 KY549218.1 KY549237.1 KY549238.1 KY549239.1 KY549240.1 KY549243.1 KY549255.1 KY549256.1 KY549259.1 KY549260.1 KY549264.1 KY549278.1 KY549279.1 KY549282.1 KY549283.1 LC368952.1 LC368955.1 LC368957.1 LC368960.1 LC368961.1 LC368962.1 LC368963.1 LC368965.1 LC368969.1 LC368970.1 LC368971.1 LC368972.1 LC368973.1 LC368974.1 LC368975.1 LC368978.1 LC368981.1 LC368983.1 LC368985.1 LC368986.1 LC368988.1 LC368989.1 LC368990.1 LC368991.1 LC368992.1 LC368994.1 LC368995.1 LC368996.1 LC368997.1 MH892050.1 LC456181.1 LC456183.1 LC456185.1 LC456189.1 LC456194.1 LC456196.1 LC456198.1 LC456200.1 LC456630.1 LC456631.1 LC456632.1 LC456634.1 LC456635.1 LC456636.1 LC456625.1 LC456622.1 LC456621.1 LC456620.1 LC456619.1 LC456616.1 LC456613.1 LC456611.1 LC456609.1 LC456606.1 LC511106.1 LC511108.1 LC511109.1 LC511110.1 LC511111.1 MN961211.1 LC644170.1 LC644173.1 LC644174.1 LC644175.1 LC644176.1 LC644177.1 LC644178.1 LC644179.1 LC644188.1 LC647442.1 LC647443.1 LC647445.1 LC647446.1 LC647448.1 LC647449.1 LC647450.1 LC647451.1 LC647452.1 LC647453.1 LC647454.1 LC647455.1 LC647456.1 K02718.1 AF125673.1 AF472509.1 AF536179.1 EU918764.1 HQ644243.1 HQ644244.1 HQ644248.1 HQ644250.1 HQ644251.1 HQ644252.1 HQ644268.1 HQ644291.1 HQ644292.1 HQ644294.1 HQ644295.1 KU298883.1 KY549209.1 KY549210.1 KY549212.1 KY549262.1 KY549263.1 KY549284.1 LC368958.1 LC368987.1 KY994539.1 LC456180.1 LC456188.1 LC456193.1 LC456195.1 LC456626.1 LC456607.1 LC644182.1 LC644185.1 LC647447.1 HQ644265.1 HQ644282.1 HQ644283.1 HQ644286.1 AB818687.1 AB818690.1 LC368959.1 LC647457.1 HQ644272.1 KY549231.1 HQ644287.1 KP212151.1 KP212152.1 KP212156.1 KP212157.1 KP212159.1 LC456624.1 KP212153.1 KP212154.1 HQ644257.1 LC644168.1 LC368982.1 LC647440.1 LC644164.1 JQ004099.1 LC368966.1 KP212155.1 KU298882.1 LC456612.1 LC647444.1 KP212150.1 KP212158.1 KP874717.1 KP874716.1 KP874719.1 KP874718.1 LC511105.1 LC644187.1
JN565303.1	395	599	506	100.00	AACAAACCGTTGTGTGA	AGATTTGCAACCAGAGA	AACAAACCGTTGTGTGATTTGTTAATTAGGTGTATTAACTGTCAAAAGCCACTGTGTCCTGAAGAAAAGCAAAGACATCTGGACAAAAAGCAAAGATTCCATAATATAAGGGGTCGGTGGACCGGTCGATGTATGTCTTGTTGCAGATCATCAAGAACACGTAGAGAAACCCAGCTGTAATCATGCATGGAGATACACCTACATTGCATGAATATATGTTAGATTTGCAACCAGAGA	237	JN565303.1 KY549224.1 KY549225.1 JQ004093.1 JN565302.1 JQ067943.1 JQ067944.1 KY549166.1 KY549200.1 KY549211.1 KY549246.1 KY549247.1 KY549248.1 LC456192.1 LC647441.1 LC368984.1 LC368964.1 LC368976.1 LC456187.1 FJ006723.1 KU684311.1 HM057182.1 LC644181.1 MK484705.1 JQ004092.1 KY549221.1 KY549274.1 KY549275.1 KY549276.1 LC644189.1 HQ644253.1 KY549160.1 KY549164.1 KY549287.1 KY549288.1 HQ644242.1 HQ644270.1 HQ644298.1 AB889493.1 KU684313.1 KU684315.1 KY549167.1 KY549234.1 KY549235.1 KY549236.1 LC456623.1 MN961212.1 MN961214.1 MN961216.1 MN961217.1 MW320358.1 AF472508.1 HQ644238.1 HQ644240.1 HQ644241.1 HQ644255.1 HQ644269.1 HQ644277.1 HQ644290.1 HQ644293.1 KU641509.1 KU684314.1 KY549171.1 KY549206.1 KY549208.1 KY549222.1 KY549223.1 KY549298.1 KY549299.1 LC368953.1 LC368993.1 LC456190.1 LC456618.1 MT783409.1 MN961210.1 MN961213.1 AY686582.1 AY686583.1 JQ004097.1 HQ644254.1 HQ644259.1 HQ644278.1 AB818689.1 KY549172.1 KY549183.1 KY549184.1 KY549185.1 KY549191.1 KY549196.1 KY549207.1 KY549213.1 KY549219.1 KY549220.1 KY549269.1 KY549270.1 KY549292.1 KY549293.1 KY549296.1 KY549297.1 KY549310.1 KY549311.1 KY549318.1 KY549319.1 LC368979.1 LR861899.1 LC644166.1 LC644190.1 AF402678.1 AF536180.1 AY686579.1 AY686580.1 AY686581.1 AY686584.1 EU118173.1 FJ610146.1 FJ610147.1 FJ610148.1 FJ610149.1 FJ610151.1 JQ004095.1 JQ004098.1 HQ644247.1 HQ644256.1 HQ644258.1 HQ644260.1 HQ644262.1 HQ644263.1 HQ644264.1 HQ644266.1 HQ644267.1 HQ644271.1 HQ644273.1 HQ644276.1 HQ644279.1 HQ644285.1 HQ644288.1 HQ644289.1 KC935953.1 AB818688.1 AB818691.1 AB889488.1 AB889489.1 KF954093.1 KF880690.1 KU298880.1 KU298881.1 KU298885.1 KU684312.1 KU684316.1 KU684317.1 NC_001526.4 KY883659.1 KY549161.1 KY549175.1 KY549177.1 KY549178.1 KY549180.1 KY549182.1 KY549187.1 KY549188.1 KY549189.1 KY549190.1 KY549193.1 KY549194.1 KY549198.1 KY549199.1 KY549201.1 KY549202.1 KY549203.1 KY549205.1 KY549214.1 KY549215.1 KY549216.1 KY549226.1 KY549227.1 KY549228.1 KY549229.1 KY549230.1 KY549232.1 KY549233.1 KY549241.1 KY549242.1 KY549244.1 KY549245.1 KY549249.1 KY549250.1 KY549251.1 KY549252.1 KY549253.1 KY549254.1 KY549257.1 KY549258.1 KY549261.1 KY549265.1 KY549266.1 KY549267.1 KY549268.1 KY549271.1 KY549272.1 KY549273.1 KY549277.1 KY549280.1 KY549281.1 KY549285.1 KY549286.1 KY549289.1 KY549290.1 KY549291.1 KY549294.1 KY549295.1 KY549300.1 KY549301.1 KY549302.1 KY549303.1 KY549304.1 KY549305.1 KY549306.1 KY549307.1 KY549308.1 KY549309.1 KY549312.1 KY549313.1 KY549314.1 KY549315.1 KY549316.1 KY549317.1 KY549320.1 KY549321.1 KX947269.1 KX947270.1 KX947271.1 KX947272.1 KX947273.1 KX947274.1 KX947275.1 KX947276.1 KX947277.1 KX947278.1 KX947279.1 KX947280.1 KX947281.1 KX947282.1 KX947283.1 KX947284.1 KX947285.1 LC368954.1 LC368956.1 LC368967.1 LC368968.1 LC368977.1 LC368980.1 LC456182.1 LC456184.1 LC456186.1 LC456191.1 LC456197.1 LC456199.1 LC456201.1 LC456633.1 LC456637.1 LC456629.1 LC456628.1 LC456627.1 LC456617.1 LC456615.1 LC456614.1 LC456610.1 LC456608.1 LC511107.1 LC511112.1 LR861897.1 MT783410.1 MN961215.1 LC644165.1 LC644167.1 LC644169.1 LC644171.1 LC644172.1 LC644180.1 LC644183.1 LC644184.1 LC644186.1 LC644191.1 LC647437.1 LC647438.1 LC647439.1 AF534061.1 FJ610150.1 FJ610152.1 JQ004094.1 JQ004096.1 HQ644234.1 HQ644235.1 HQ644236.1 HQ644237.1 HQ644239.1 HQ644245.1 HQ644246.1 HQ644249.1 HQ644261.1 HQ644274.1 HQ644275.1 HQ644280.1 HQ644281.1 HQ644284.1 HQ644296.1 HQ644297.1 HQ644299.1 AB818692.1 AB818693.1 AB889490.1 AB889491.1 AB889492.1 AB889494.1 LC193821.1 KY549156.1 KY549157.1 KY549158.1 KY549159.1 KY549162.1 KY549163.1 KY549165.1 KY549168.1 KY549169.1 KY549170.1 KY549173.1 KY549174.1 KY549176.1 KY549179.1 KY549181.1 KY549186.1 KY549192.1 KY549195.1 KY549197.1 KY549204.1 KY549217.1 KY549218.1 KY549237.1 KY549238.1 KY549239.1 KY549240.1 KY549243.1 KY549255.1 KY549256.1 KY549259.1 KY549260.1 KY549264.1 KY549278.1 KY549279.1 KY549282.1 KY549283.1 LC368952.1 LC368955.1 LC368957.1 LC368960.1 LC368961.1 LC368962.1 LC368963.1 LC368965.1 LC368969.1 LC368970.1 LC368971.1 LC368972.1 LC368973.1 LC368974.1 LC368975.1 LC368978.1 LC368981.1 LC368983.1 LC368985.1 LC368986.1 LC368988.1 LC368989.1 LC368990.1 LC368991.1 LC368992.1 LC368994.1 LC368995.1 LC368996.1 LC368997.1 MH892050.1 LC456181.1 LC456183.1 LC456185.1 LC456189.1 LC456194.1 LC456196.1 LC456198.1 LC456200.1 LC456630.1 LC456631.1 LC456632.1 LC456634.1 LC456635.1 LC456636.1 LC456625.1 LC456622.1 LC456621.1 LC456620.1 LC456619.1 LC456616.1 LC456613.1 LC456611.1 LC456609.1 LC456606.1 LC511106.1 LC511108.1 LC511109.1 LC511110.1 LC511111.1 MN961211.1 LC644170.1 LC644173.1 LC644174.1 LC644175.1 LC644176.1 LC644177.1 LC644178.1 LC644179.1 LC644188.1 LC647442.1 LC647443.1 LC647445.1 LC647446.1 LC647448.1 LC647449.1 LC647450.1 LC647451.1 LC647452.1 LC647453.1 LC647454.1 LC647455.1 LC647456.1 K02718.1 AF125673.1 AF472509.1 AF536179.1 EU918764.1 HQ644243.1 HQ644244.1 HQ644248.1 HQ644250.1 HQ644251.1 HQ644252.1 HQ644268.1 HQ644291.1 HQ644292.1 HQ644294.1 HQ644295.1 KU298883.1 KY549209.1 KY549210.1 KY549212.1 KY549262.1 KY549263.1 KY549284.1 LC368958.1 LC368987.1 KY994539.1 LC456180.1 LC456188.1 LC456193.1 LC456195.1 LC456626.1 LC456607.1 LC644182.1 LC644185.1 LC647447.1 HQ644265.1 HQ644282.1 HQ644283.1 HQ644286.1 AB818687.1 AB818690.1 LC368959.1 LC647457.1 HQ644272.1 KY549231.1 HQ644287.1 KP212151.1 KP212152.1 KP212156.1 KP212157.1 KP212159.1 LC456624.1 KP212153.1 KP212154.1 HQ644257.1 LC644168.1 LC368982.1 LC647440.1 LC644164.1 JQ004099.1 LC368966.1 KP212155.1 KU298882.1 LC456612.1 LC647444.1 KP212150.1 KP212158.1 KP874717.1 KP874716.1 KP874719.1 KP874718.1 LC511105.1 LC644187.1
JN565303.1	3177	3367	506	100.00	ATACAGTGGAAGTGCAG	TGGGAAGTTCATGCGGG	ATACAGTGGAAGTGCAGTTTGATGGAGACATATGCAATACAATGCATTATACAAACTGGACACATATATATATTTGTGAAGAAGCATCAGTAACTGTGGTAGAGGGTCAAGTTGACTATTATGGTTTATATTATGTTCATGAAGGAATACGAACATATTTTGTGCAGTTTAAAGATGATGCAGAAAAATATAGTAAAAATAAAGTATGGGAAGTTCATGCGGG	223	JN565303.1 KY549224.1 KY549225.1 JQ004093.1 JN565302.1 JQ067943.1 JQ067944.1 KY549166.1 KY549200.1 KY549211.1 KY549246.1 KY549247.1 KY549248.1 LC456192.1 LC647441.1 LC368984.1 LC368964.1 LC368976.1 LC456187.1 FJ006723.1 KU684311.1 HM057182.1 LC644181.1 MK484705.1 JQ004092.1 KY549221.1 KY549274.1 KY549275.1 KY549276.1 LC644189.1 HQ644253.1 KY549160.1 KY549164.1 KY549287.1 KY549288.1 HQ644242.1 HQ644270.1 HQ644298.1 AB889493.1 KU684313.1 KU684315.1 KY549167.1 KY549234.1 KY549235.1 KY549236.1 LC456623.1 MN961212.1 MN961214.1 MN961216.1 MN961217.1 MW320358.1 AF472508.1 HQ644238.1 HQ644240.1 HQ644241.1 HQ644255.1 HQ644269.1 HQ644277.1 HQ644290.1 HQ644293.1 KU641509.1 KU684314.1 KY549171.1 KY549206.1 KY549208.1 KY549222.1 KY549223.1 KY549298.1 KY549299.1 LC368953.1 LC368993.1 LC456190.1 LC456618.1 MT783409.1 MN961210.1 MN961213.1 AY686582.1 AY686583.1 JQ004097.1 HQ644254.1 HQ644259.1 HQ644278.1 AB818689.1 KY549172.1 KY549183.1 KY549184.1 KY549185.1 KY549191.1 KY549196.1 KY549207.1 KY549213.1 KY549219.1 KY549220.1 KY549269.1 KY549270.1 KY549292.1 KY549293.1 KY549296.1 KY549297.1 KY549310.1 KY549311.1 KY549318.1 KY549319.1 LC368979.1 LR861899.1 LC644166.1 LC644190.1 AF402678.1 AF536180.1 AY686579.1 AY686580.1 AY686581.1 AY686584.1 EU118173.1 FJ610146.1 FJ610147.1 FJ610148.1 FJ610149.1 FJ610151.1 JQ004095.1 JQ004098.1 HQ644247.1 HQ644256.1 HQ644258.1 HQ644260.1 HQ644262.1 HQ644263.1 HQ644264.1 HQ644266.1 HQ644267.1 HQ644271.1 HQ644273.1 HQ644276.1 HQ644279.1 HQ644285.1 HQ644288.1 HQ644289.1 KC935953.1 AB818688.1 AB818691.1 AB889488.1 AB889489.1 KF954093.1 KF880690.1 KU298880.1 KU298881.1 KU298885.1 KU684312.1 KU684316.1 KU684317.1 NC_001526.4 KY883659.1 KY549161.1 KY549175.1 KY549177.1 KY549178.1 KY549180.1 KY549182.1 KY549187.1 KY549188.1 KY549189.1 KY549190.1 KY549193.1 KY549194.1 KY549198.1 KY549199.1 KY549201.1 KY549202.1 KY549203.1 KY549205.1 KY549214.1 KY549215.1 KY549216.1 KY549226.1 KY549227.1 KY549228.1 KY549229.1 KY549230.1 KY549232.1 KY549233.1 KY549241.1 KY549242.1 KY549244.1 KY549245.1 KY549249.1 KY549250.1 KY549251.1 KY549252.1 KY549253.1 KY549254.1 KY549257.1 KY549258.1 KY549261.1 KY549265.1 KY549266.1 KY549267.1 KY549268.1 KY549271.1 KY549272.1 KY549273.1 KY549277.1 KY549280.1 KY549281.1 KY549285.1 KY549286.1 KY549289.1 KY549290.1 KY549291.1 KY549294.1 KY549295.1 KY549300.1 KY549301.1 KY549302.1 KY549303.1 KY549304.1 KY549305.1 KY549306.1 KY549307.1 KY549308.1 KY549309.1 KY549312.1 KY549313.1 KY549314.1 KY549315.1 KY549316.1 KY549317.1 KY549320.1 KY549321.1 KX947269.1 KX947270.1 KX947271.1 KX947272.1 KX947273.1 KX947274.1 KX947275.1 KX947276.1 KX947277.1 KX947278.1 KX947279.1 KX947280.1 KX947281.1 KX947282.1 KX947283.1 KX947284.1 KX947285.1 LC368954.1 LC368956.1 LC368967.1 LC368968.1 LC368977.1 LC368980.1 LC456182.1 LC456184.1 LC456186.1 LC456191.1 LC456197.1 LC456199.1 LC456201.1 LC456633.1 LC456637.1 LC456629.1 LC456628.1 LC456627.1 LC456617.1 LC456615.1 LC456614.1 LC456610.1 LC456608.1 LC511107.1 LC511112.1 LR861897.1 MT783410.1 MN961215.1 LC644165.1 LC644167.1 LC644169.1 LC644171.1 LC644172.1 LC644180.1 LC644183.1 LC644184.1 LC644186.1 LC644191.1 LC647437.1 LC647438.1 LC647439.1 AF534061.1 FJ610150.1 FJ610152.1 JQ004094.1 JQ004096.1 HQ644234.1 HQ644235.1 HQ644236.1 HQ644237.1 HQ644239.1 HQ644245.1 HQ644246.1 HQ644249.1 HQ644261.1 HQ644274.1 HQ644275.1 HQ644280.1 HQ644281.1 HQ644284.1 HQ644296.1 HQ644297.1 HQ644299.1 AB818692.1 AB818693.1 AB889490.1 AB889491.1 AB889492.1 AB889494.1 LC193821.1 KY549156.1 KY549157.1 KY549158.1 KY549159.1 KY549162.1 KY549163.1 KY549165.1 KY549168.1 KY549169.1 KY549170.1 KY549173.1 KY549174.1 KY549176.1 KY549179.1 KY549181.1 KY549186.1 KY549192.1 KY549195.1 KY549197.1 KY549204.1 KY549217.1 KY549218.1 KY549237.1 KY549238.1 KY549239.1 KY549240.1 KY549243.1 KY549255.1 KY549256.1 KY549259.1 KY549260.1 KY549264.1 KY549278.1 KY549279.1 KY549282.1 KY549283.1 LC368952.1 LC368955.1 LC368957.1 LC368960.1 LC368961.1 LC368962.1 LC368963.1 LC368965.1 LC368969.1 LC368970.1 LC368971.1 LC368972.1 LC368973.1 LC368974.1 LC368975.1 LC368978.1 LC368981.1 LC368983.1 LC368985.1 LC368986.1 LC368988.1 LC368989.1 LC368990.1 LC368991.1 LC368992.1 LC368994.1 LC368995.1 LC368996.1 LC368997.1 MH892050.1 LC456181.1 LC456183.1 LC456185.1 LC456189.1 LC456194.1 LC456196.1 LC456198.1 LC456200.1 LC456630.1 LC456631.1 LC456632.1 LC456634.1 LC456635.1 LC456636.1 LC456625.1 LC456622.1 LC456621.1 LC456620.1 LC456619.1 LC456616.1 LC456613.1 LC456611.1 LC456609.1 LC456606.1 LC511106.1 LC511108.1 LC511109.1 LC511110.1 LC511111.1 MN961211.1 LC644170.1 LC644173.1 LC644174.1 LC644175.1 LC644176.1 LC644177.1 LC644178.1 LC644179.1 LC644188.1 LC647442.1 LC647443.1 LC647445.1 LC647446.1 LC647448.1 LC647449.1 LC647450.1 LC647451.1 LC647452.1 LC647453.1 LC647454.1 LC647455.1 LC647456.1 K02718.1 AF125673.1 AF472509.1 AF536179.1 EU918764.1 HQ644243.1 HQ644244.1 HQ644248.1 HQ644250.1 HQ644251.1 HQ644252.1 HQ644268.1 HQ644291.1 HQ644292.1 HQ644294.1 HQ644295.1 KU298883.1 KY549209.1 KY549210.1 KY549212.1 KY549262.1 KY549263.1 KY549284.1 LC368958.1 LC368987.1 KY994539.1 LC456180.1 LC456188.1 LC456193.1 LC456195.1 LC456626.1 LC456607.1 LC644182.1 LC644185.1 LC647447.1 HQ644265.1 HQ644282.1 HQ644283.1 HQ644286.1 AB818687.1 AB818690.1 LC368959.1 LC647457.1 HQ644272.1 KY549231.1 HQ644287.1 KP212151.1 KP212152.1 KP212156.1 KP212157.1 KP212159.1 LC456624.1 KP212153.1 KP212154.1 HQ644257.1 LC644168.1 LC368982.1 LC647440.1 LC644164.1 JQ004099.1 LC368966.1 KP212155.1 KU298882.1 LC456612.1 LC647444.1 KP212150.1 KP212158.1 KP874717.1 KP874716.1 KP874719.1 KP874718.1 LC511105.1 LC644187.1
JN565303.1	2753	2841	506	100.00	TTAATGATAAGAACTGG	AAATGTGTGTCAGGACA	TTAATGATAAGAACTGGAAATCCTTTTTCTCAAGGACGTGGTCCAGATTAAGTTTGCACGAGGACGAGGACAAGGAAAACGATGGAGACTCTTTGCCAACGTTTAAATGTGTGTCAGGACA	121	JN565303.1 KY549224.1 KY549225.1 JQ004093.1 JN565302.1 JQ067943.1 JQ067944.1 KY549166.1 KY549200.1 KY549211.1 KY549246.1 KY549247.1 KY549248.1 LC456192.1 LC647441.1 LC368984.1 LC368964.1 LC368976.1 LC456187.1 FJ006723.1 KU684311.1 HM057182.1 LC644181.1 MK484705.1 JQ004092.1 KY549221.1 KY549274.1 KY549275.1 KY549276.1 LC644189.1 HQ644253.1 KY549160.1 KY549164.1 KY549287.1 KY549288.1 HQ644242.1 HQ644270.1 HQ644298.1 AB889493.1 KU684313.1 KU684315.1 KY549167.1 KY549234.1 KY549235.1 KY549236.1 LC456623.1 MN961212.1 MN961214.1 MN961216.1 MN961217.1 MW320358.1 AF472508.1 HQ644238.1 HQ644240.1 HQ644241.1 HQ644255.1 HQ644269.1 HQ644277.1 HQ644290.1 HQ644293.1 KU641509.1 KU684314.1 KY549171.1 KY549206.1 KY549208.1 KY549222.1 KY549223.1 KY549298.1 KY549299.1 LC368953.1 LC368993.1 LC456190.1 LC456618.1 MT783409.1 MN961210.1 MN961213.1 AY686582.1 AY686583.1 JQ004097.1 HQ644254.1 HQ644259.1 HQ644278.1 AB818689.1 KY549172.1 KY549183.1 KY549184.1 KY549185.1 KY549191.1 KY549196.1 KY549207.1 KY549213.1 KY549219.1 KY549220.1 KY549269.1 KY549270.1 KY549292.1 KY549293.1 KY549296.1 KY549297.1 KY549310.1 KY549311.1 KY549318.1 KY549319.1 LC368979.1 LR861899.1 LC644166.1 LC644190.1 AF402678.1 AF536180.1 AY686579.1 AY686580.1 AY686581.1 AY686584.1 EU118173.1 FJ610146.1 FJ610147.1 FJ610148.1 FJ610149.1 FJ610151.1 JQ004095.1 JQ004098.1 HQ644247.1 HQ644256.1 HQ644258.1 HQ644260.1 HQ644262.1 HQ644263.1 HQ644264.1 HQ644266.1 HQ644267.1 HQ644271.1 HQ644273.1 HQ644276.1 HQ644279.1 HQ644285.1 HQ644288.1 HQ644289.1 KC935953.1 AB818688.1 AB818691.1 AB889488.1 AB889489.1 KF954093.1 KF880690.1 KU298880.1 KU298881.1 KU298885.1 KU684312.1 KU684316.1 KU684317.1 NC_001526.4 KY883659.1 KY549161.1 KY549175.1 KY549177.1 KY549178.1 KY549180.1 KY549182.1 KY549187.1 KY549188.1 KY549189.1 KY549190.1 KY549193.1 KY549194.1 KY549198.1 KY549199.1 KY549201.1 KY549202.1 KY549203.1 KY549205.1 KY549214.1 KY549215.1 KY549216.1 KY549226.1 KY549227.1 KY549228.1 KY549229.1 KY549230.1 KY549232.1 KY549233.1 KY549241.1 KY549242.1 KY549244.1 KY549245.1 KY549249.1 KY549250.1 KY549251.1 KY549252.1 KY549253.1 KY549254.1 KY549257.1 KY549258.1 KY549261.1 KY549265.1 KY549266.1 KY549267.1 KY549268.1 KY549271.1 KY549272.1 KY549273.1 KY549277.1 KY549280.1 KY549281.1 KY549285.1 KY549286.1 KY549289.1 KY549290.1 KY549291.1 KY549294.1 KY549295.1 KY549300.1 KY549301.1 KY549302.1 KY549303.1 KY549304.1 KY549305.1 KY549306.1 KY549307.1 KY549308.1 KY549309.1 KY549312.1 KY549313.1 KY549314.1 KY549315.1 KY549316.1 KY549317.1 KY549320.1 KY549321.1 KX947269.1 KX947270.1 KX947271.1 KX947272.1 KX947273.1 KX947274.1 KX947275.1 KX947276.1 KX947277.1 KX947278.1 KX947279.1 KX947280.1 KX947281.1 KX947282.1 KX947283.1 KX947284.1 KX947285.1 LC368954.1 LC368956.1 LC368967.1 LC368968.1 LC368977.1 LC368980.1 LC456182.1 LC456184.1 LC456186.1 LC456191.1 LC456197.1 LC456199.1 LC456201.1 LC456633.1 LC456637.1 LC456629.1 LC456628.1 LC456627.1 LC456617.1 LC456615.1 LC456614.1 LC456610.1 LC456608.1 LC511107.1 LC511112.1 LR861897.1 MT783410.1 MN961215.1 LC644165.1 LC644167.1 LC644169.1 LC644171.1 LC644172.1 LC644180.1 LC644183.1 LC644184.1 LC644186.1 LC644191.1 LC647437.1 LC647438.1 LC647439.1 AF534061.1 FJ610150.1 FJ610152.1 JQ004094.1 JQ004096.1 HQ644234.1 HQ644235.1 HQ644236.1 HQ644237.1 HQ644239.1 HQ644245.1 HQ644246.1 HQ644249.1 HQ644261.1 HQ644274.1 HQ644275.1 HQ644280.1 HQ644281.1 HQ644284.1 HQ644296.1 HQ644297.1 HQ644299.1 AB818692.1 AB818693.1 AB889490.1 AB889491.1 AB889492.1 AB889494.1 LC193821.1 KY549156.1 KY549157.1 KY549158.1 KY549159.1 KY549162.1 KY549163.1 KY549165.1 KY549168.1 KY549169.1 KY549170.1 KY549173.1 KY549174.1 KY549176.1 KY549179.1 KY549181.1 KY549186.1 KY549192.1 KY549195.1 KY549197.1 KY549204.1 KY549217.1 KY549218.1 KY549237.1 KY549238.1 KY549239.1 KY549240.1 KY549243.1 KY549255.1 KY549256.1 KY549259.1 KY549260.1 KY549264.1 KY549278.1 KY549279.1 KY549282.1 KY549283.1 LC368952.1 LC368955.1 LC368957.1 LC368960.1 LC368961.1 LC368962.1 LC368963.1 LC368965.1 LC368969.1 LC368970.1 LC368971.1 LC368972.1 LC368973.1 LC368974.1 LC368975.1 LC368978.1 LC368981.1 LC368983.1 LC368985.1 LC368986.1 LC368988.1 LC368989.1 LC368990.1 LC368991.1 LC368992.1 LC368994.1 LC368995.1 LC368996.1 LC368997.1 MH892050.1 LC456181.1 LC456183.1 LC456185.1 LC456189.1 LC456194.1 LC456196.1 LC456198.1 LC456200.1 LC456630.1 LC456631.1 LC456632.1 LC456634.1 LC456635.1 LC456636.1 LC456625.1 LC456622.1 LC456621.1 LC456620.1 LC456619.1 LC456616.1 LC456613.1 LC456611.1 LC456609.1 LC456606.1 LC511106.1 LC511108.1 LC511109.1 LC511110.1 LC511111.1 MN961211.1 LC644170.1 LC644173.1 LC644174.1 LC644175.1 LC644176.1 LC644177.1 LC644178.1 LC644179.1 LC644188.1 LC647442.1 LC647443.1 LC647445.1 LC647446.1 LC647448.1 LC647449.1 LC647450.1 LC647451.1 LC647452.1 LC647453.1 LC647454.1 LC647455.1 LC647456.1 K02718.1 AF125673.1 AF472509.1 AF536179.1 EU918764.1 HQ644243.1 HQ644244.1 HQ644248.1 HQ644250.1 HQ644251.1 HQ644252.1 HQ644268.1 HQ644291.1 HQ644292.1 HQ644294.1 HQ644295.1 KU298883.1 KY549209.1 KY549210.1 KY549212.1 KY549262.1 KY549263.1 KY549284.1 LC368958.1 LC368987.1 KY994539.1 LC456180.1 LC456188.1 LC456193.1 LC456195.1 LC456626.1 LC456607.1 LC644182.1 LC644185.1 LC647447.1 HQ644265.1 HQ644282.1 HQ644283.1 HQ644286.1 AB818687.1 AB818690.1 LC368959.1 LC647457.1 HQ644272.1 KY549231.1 HQ644287.1 KP212151.1 KP212152.1 KP212156.1 KP212157.1 KP212159.1 LC456624.1 KP212153.1 KP212154.1 HQ644257.1 LC644168.1 LC368982.1 LC647440.1 LC644164.1 JQ004099.1 LC368966.1 KP212155.1 KU298882.1 LC456612.1 LC647444.1 KP212150.1 KP212158.1 KP874717.1 KP874716.1 KP874719.1 KP874718.1 LC511105.1 LC644187.1

Author notes about the output

Hit number and hit percent means that from the region we can find primers who will amplify the corresponding hit targets.
Primers should selected around the region. If we have primer design workflow, I suggest that pick and check primers from the middle point of the region (also provided by file suffix ".mid.bed").
For conserved species, we can use a big k value, e.g., -k 30; and a small k value, e.g., -k 16 for less conserved species.
Paired-kmers has options for limiting kmers with proper GC content and skipping repeated nucleotides. However, these options are used for reducting kmers to control memory when finding conserved regions in some very large genome database. So, the output should not used directly as primers, even they are paired. Good primers should also be checked for dimers, non-specificity etc. My previous work MFEprimer (http://academic.oup.com/nar/article/47/W1/W610/5486745) is designed for primers quality check if you need.

Note about genome sequences

We compare sequences to find the conserved regions, so we recommend:

use complete genome sequences in priority;
collect as many as sequences as possible;
scaffold or partial sequences are valuable when few of comple genomes are available.

Issues and Bugs

https://github.com/quwubin/paired-kmers/issues

Cite us

Manuscript is submitted.

Contact

Wubin Qu (quwubin@gmail.com)

Haoyang Cai (haoyang.cai@scu.edu.cn)

Name		Name	Last commit message	Last commit date
Latest commit History 34 Commits
test		test
LICENSE		LICENSE
README.md		README.md
go.mod		go.mod
go.sum		go.sum
paired-kmers.go		paired-kmers.go
pk.py		pk.py

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Paired-Kmers: finding conserved regions in highly diverse genomes

Introduction

Installation

Usage

Output

Author notes about the output

Note about genome sequences

Issues and Bugs

Cite us

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Paired-Kmers: finding conserved regions in highly diverse genomes

Introduction

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Author notes about the output

Note about genome sequences

Issues and Bugs

Cite us

Contact

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