>input_sequence_76107
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-------------------------------------------------AT---GGCGGCGATCCACCAGCAGCAGCAGC
ACATGCCCCTTCTTCTCCTCACCTTCCTCCTCGCGGCGTCCACGGCGGCGGCCCGGCCTTCGTACGTCATCAAGTCGACG
TGCGTAGCGATCACCAACGCCACCGTGGGCACCCCCTACCGCTACTGCGTGCGCACGCTCGCCGCCGACCCGGCGGCCGC
GCCCGCCAGGGACGCCCGCGGGCTCGCCATTGCCGCCGCCAAGCTCACCGCCACCAACGTCTCGTCGACGCTGCACGTGC
TCAACCTGCTCGTGGACGCCCTCCAAAACTGCATCGTCACGTACCAATTCATGCAAGGGGACGTCGCCGGCGCGCTCGAC
GACCTCAGCGCCGGCCGCCTCGACGTGGCGTCGCCCAAGCTCAAGCGCGCCTCGTTCCAGCCGGATTTCTGCGAACTGGC
CATGATGGAGAGTGACACCGACAAGGATCCCGTGTCGGAGGAGAACGATGCTAACCAGTTGCTCTCCGGCATGGCGTACA
ACATCGCGGAACTCATCGCCAACAGGCGACCGCCGCCGCCAAGATGA---------------------------------
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>chr3D_1_TraesCS3D01G073200
ATAAGCATTTAACATATTTTTTAATAGTATGTATCATCTTTTGACTATGTAAACATTTATTTACAATGTAAAAATATATT
CAACGTCAAGAACATACTCTTGACATGAGTGAACATTTTTTG-AATTAGACGAAACACGTCTTCCAAACTACGCCAATAT
GCTTTTACATAACATAATCAATTTTTAAAATGTAA---------------------------------------------
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-------ATGAACTCACGTGAACATTTTTTTCTGAATGGCACGAAAGTTTTTTAAAAAATTACGCACATATTTTTTTACA
TTTTGTAAATATTTCTTTTTGAAAATGTCACAAACCTTTTTCTAAACTGATCAACATTTTTTAAATGTCAGGAAGCATTT
TTTAATGCTATTCATA-TTTTCTAAAGGTTGTGTGAACAATATTTTTACACTTCATGGACA--CTGTAAATTCACGATGG
ACATTTTTTAAAAGTTAGCTAATGTGATGTTTGAAATATACTCCCTCTGTCCCCATAATGTAAGATCGTTTCTCAAGCTA
GTATCTCAAATATAAACAGAAATAGAAAAAAGAAAAAGAAAATAAAATTGAGAGGTTAGAAAAAATAAACTAAC-AACAA
AGAAATGAATGAGCGCGCGGCTCCTCCCTCCCACGGGCAGGCAGATCGAGCGTGCTACCGGCGATCACCGCCATCCGTTC
CATTAACCCAGCATCTCGCTCGCTTC------------------GCCGTAGGAAATGGCGGTGCCGTGGCGTGCCGTCCG
GTGATCCAGGCACCGTCACTTGGACTGGC------TCCCAACAAAACAAAGATTGGTTGCTCCTAATATCGATCCCGGCC
ACCCGTCAACCAACCAACT---ACTCCATCCCTGACGCATATGCATGTCTGGATTTTGGCCACAAGCATCTTTCAGATGT
AGAGGCCGGGGTGAGCCTCCTTTTCTATAAAAAAAAATATGCATGCCTGCATGCAAGC-----ATATGTTGGGGCTACAT
CCGCCCGGTGCGGCACGACCGCACGAGTAATCAGTTAACGATCCAAGCCAT---GGCGGCGATCCACCAGCAGCAGCAGC
ACATGCCCCTTCTTCTCCTCACCTTCCTCCTCGCGGCGTCCACGGCGGCGGCCCGGCCTTCGTACGTCATCAAGTCGACG
TGCGTAGCGATCACCAACGCCACCGTGGGCACCCCCTACCGCTACTGCGTGCGCACGCTCGCCGCCGACCCGGCGGCCGC
GCCCGCCAGGGACGCCCGCGGGCTCGCCATTGCCGCCGCCAAGCTCACCGCCACCAACGTCTCGTCGACGCTGCACGTGC
TCAACCTGCTCGTGGACGCCCTCCAAAACTGCATCGTCACGTACCAATTCATGCAAGGGGACGTCGCCGGCGCGCTCGAC
GACCTCAGCGCCGGCCGCCTCGACGTGGCGTCGCCCAAGCTCAAGCGCGCCTCGTTCCAGCCGGATTTCTGCGAACTGGC
CATGATGGAGAGTGACACCGACAAGGATCCCGTGTCGGAGGAGAACGATGCTAACCAGTTGCTCTCCGGCATGGCGTACA
ACATCGCGGAACTCATCGCCAACAGGCGACCGCCGCCGCCAAGATGAAGAAGTGATGGTGGTTATTACATTAGTCTTGTC
TTGTGGGTAACCAAGTTTAGTTTTCATTTCATTACTTTGTTAGGAGATTCGTACGATTGGAGGAGAACGGATTTACTAAT
TCACAATTAAGTCTCAGTCAACGCTATAACCATCTAAATTTTTAGGAGATTCGTACGATTTTCCTTTGTTC--TTTTGTT
TTTTATGTTTCTTGGCTCATCTTTTTTG---TTTTTTTTCTTAGATTCCTATTTTCCTTTTTTCCTGTCCAACTACAGTT
GTATAGCCCGTCAGCA----------------------------------------------------------------
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----ACACAACGATCCCTTGTCGATCGCATGCAACTATAGTTGCACACACGCCGACCATGCAACAACAGTTGCACATCCT
CTATTGTCAGCCACACAACCATCTCTTATCGATCGCATGCACTAAAGTTGCACACGCGTCGGCCATGCAACAACAGTTGC
ACATCCTCTATGAGCGCTGCTACGCAGACGACGATGCGCGGACGATTTGCGCACGACGCTGCACATCAGGTCGTCCATGT
ATATCATCGAAGTCCAGTGGACGGCTGTATGTGGCATCGTCCAACTGTCGTGCGATCGATCTATCGTCTGTACAGCATTT
TCGATCCTCTATTGACCATGCAACTGCAGTTGCACATCTCTCATCAGATGCGC-AAAAAATAGCGACAAAAAAAGGTAAA
AGTAAAGAAAAAATTGATAAACATGAAGAAAAAT--------AGGCAAAACGTCCTATGTTGGTGCCAACTGAAGTGAGA
TTTAGTTAAACTCACTCGATCGACATCAACTTTGTTTCAATATTGGAAACCGGCAGTACTCCCTCCGTCCCACGATATAA
GACGTTTTTGCAAGCTAGTATTATGGTAGCTGTGAACTATTGTAGTAACACATGAACACTCAGTTCAAAGTGCATATCAT
AAGACACACTGGCGGAGCCTCGAGGAGGCCAAGGGGGGCGTAATCCCCCTTCCAAAATTGCATTCTTTTACTACATATAC
TTAGTGTTT
>chr3B_19
------------------TTTGAATAGTATAAATCATTTTTTAACTATGTAAACATTTATTTACACTGTAAAAATATATT
TAATGTCAAGAACATATTCTTGACATGCGTGAACATTTTTTTTAATTAGACGAAACACGTCTTTCGAACTACACCAATAT
GCTTTTACATAACATAATCAATTTTTAAAATGTGATGAACTCATGTGTTAATGGGCCAGCCCAGTATTGTACCTGCTAGG
AGTAGTTTTGGTAAGACTCCATGAACCAGTTCGGTCCGTTTACGAAAGATTCTACGTGGTTGTTTTTTGTGTGTGTGTTT
TCCGATTTTCATGGGTTTTTTCAGTTATCCTCCAGTTTATTTTATTCCTTTTGTTTTCTATTTTTCCAATACATGTCAAT
TTTTTTGATAAACATTATAAATCTTTCTTATACATGTTTAACATTTAATACACGTTGAACATTTCTCAAATACATGATGA
ACATTTCTCCAAGTACAGATTAAATTGTTTTTCTCAAAAAAATCTAGAAAATTCAGATACACAATTTAAAAATTAACAGT
ATGAAACATTTTGAACTATGTGAACATTTATTTACACTGTATAAATATTTTTTATGTCCAGAACATATTCTTGGAACGTG
TGAAATTTTGTTTTGAATTAGATGAAACATTTATTTTAGATATACCAATATATTTTTTACATTACACAAGCGGTTTTTAA
AAATGTGATGAACTCATGTGAACATTTTTTTAACGGCGCTGTTTTTTT----------ATTACGCACATATTTTTTAACA
TTTGTTGAAAAAAAAAATGTAACATTTTTTTTA----------AAACACATCCACATTTTTAAAATGTCAGGAAGCAATT
TTTTGATGCTATCTATCTTTTCTAAAAGTTGTGTAAACAAAATGTTGACACTTCATGAACATTCTGTAAGTTCACGATGG
ACATTTTC-AAAAATTGGCTAATGTGATGTTTGAAATATATGTATTTGG-------------------------------
-------AAATATAAACA-AAATAGAAAAAAGAAAA---------------------AGAAAAAATAAACTAACAAACAA
AGAAATGAAGGAGCGCGCGGCTCCTCCCTCCCAC-----GGCAGATCGAGCGTGCTACCGGCGATCACCGCCATCCGTTC
CATTAACCCAGCATCTCGCTCGCTTCTACGCCCTGGAATAA----CCGTAGGAAATGGCCGTGCCGTGGCGTGCCGTCCG
GTGATCCAGGCATCGTCACTTGGACTGGC------TCCCAACAAAACAAAGATTGGTTGCTCCTAAGATCGATCCCGGCC
TCCCGTCAACCAACCAACTACTACTCCATCCCTCACGTCGC---------------------------------------
------------------------------------ATATGCATGCCTGCATGCAAGC-----ATATGTTGGGCTACATC
CCTCACGT-------CA--------AGTGGTTAGTTGGCGACCGAAGCCATGGCGGCGGCGATCCAGCAACAGCAGCAGC
ACATGTCCCTTCTTCTCCTCACCTTCCTCCTCGCGGCGTCCACGGCGGCGGCCCGGCCTTCGTACGTCATCAAGTCGACG
TGCGTAGTGATCACCAACGCCACCGTGGGCACCCCCTACCGCTACTGCGTGCGCACGCTTTCCGCCGACCCGGCGGCCGC
GCCCGCCACGGACGCCCGCGGGCTCGCCATTGCCGCCGCCAAGCTCACCGCCACCAACGTCTCGTCGACGTTGCACTTGC
TCAACCTGCTCGTGGACGCCCTCCAAAACTGCATCGTCACGTACCAATTCATGCAAGGGGACGTCGCCGGCGCGCTCGAC
GACCTCAGCGCCGGCCGCCTCGACGTGGCGTCGCCCAAGCTCAAGAGCGCATCGTTCCAGCCAGATTTCTGCGAACTGGC
CATGATGGAGAGTGACACCAACAAGGATCCCGTGTCGGAGGAGAACAATGCTAACCAGTTGGTCTCCGGCATGGCGTACA
ACATCGCGGAACTCGTCGCCAACAGGCGACCGCCGCCGCCAAGATGAAGAAGTAATGGTGGTTATTACATTAGTCTTGTC
TTGTGGGTAACCAAGTTTATTTTTAATTTCATTACTTTGTCACAGTTATGTTGT-----------AACGGATTTACTGAT
TAACAATTAAATCTCAGTCAACGCTATAAACATGTAATTTTTTTGGAGATTCATACGATTTTT-TTTGTCC--TTTTGTT
TTTTATGTTCCTTGGCACATCTTTTGTGTCG-TTTTTTTCTTACATTCCTAGTGTTCTTTTTTTTATGTGCCCATCAGCC
ACACAACCAGGGGCGGAGCCCTGGAATTTTGGACCGGCCCATATACCATATAGGTGGGCTAGAGAAAAGAAAAAAAAAGC
AAACAACGCACGCACCACGCAGCCTGCAGCAGACGCGAGAAACAGTGAGACGCGACTGAATCTTCTAACCCACTATGCCC
AGCCGCCGGACGCCCCATCTCCGCCAGCCTCGCTGCCTCGCCGGCCGACAGACGCCGAACCGCTCAGGAGGCTCCTCCAC
TCCTTCCTTTTCCTCGCGCCTACCGCCTGCCCAGCACTCGGCGCCAGCCGCACCACATACGAATCTGCGACCCGACCCTG
CCCTACCACCGGCCGCCTGGCGCCCTGCAGGTGCAAGCCGGCGATAGCCGTCCTGCCGCATTCTGGCACTCGCCTGGCCT
GATTTGAGGTACCATCTCCAGCAGCTCGCCAATGGGCCATTCCCCAATTTTCAATTCAGGGTTTTCTATTTGCTTATCGT
GCACAGTACTATATTACATGAACGACGAACATACACATAGTTTTGCACATCATTTATGTCCAGTTATGTCATTGTGGTTT
ATAGAAAGTAAATTCTTATTATAGAATTATTGAAGCATAGTTATCTTTAACTTTTCAGGGTATGTACTTAGAGCCTGTTC
GGACTCTCTCCCCGCTCCAACTCCGCTCTGGAGCGGAGCAGCATCCAGTTCAATTTTTCAAAGTCACTCAAGGGCCACTC
TGCGCGCTCCGCTCCATGCCGTGAAGGAGCGGAGGGTTGCCGAACAGGGCCATATAGTCTAGACTAGTACTGTGTATTCT
TCTTTATGGCAAACTGGGACTTATTCGGAATTTTAGTATGATTATAAGACCACATTGATCTATTCCTGTGTGGTGTTGTA
ATTACTCACAAACATTGACATGTTATGTCTGTTGTCAAAAAAATTGAGGATCATCCTGGTTTCAAATCCTAGCTCCGCCA
CTGCACACAACCATCCCTTGTCGCTTGCATGCAACTGCGATTGCACGCGCGCCAGCCATGCAACAACAGTTGCACATCCT
CTATTG--------------------------------------------------------------------------
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>chr3A_562
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---------------------------------------------------------AGAAAAAATAAACTGACAAACAA
AGAAATAAAGGAGCGCGCGGCTCCTCCCTCCCAC-----GGCAGATCGAGCGTGCTACCGGCGATCACCGCCATCCGTTC
CACTAACCCAGCATCTCGCTCGCTTCTACGCCCTGGAATTAATAGCCGTAGGAAATGGCCGTGCCGT----------CCG
GTGATCCAGACATCGTAACTTGGACTGCCTCCCAATCCCAACAAAACAAAGATTGGTTGCTCCTAAGATCGG--------
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------------------------------------ATATGCATGCCTGCATGCAAGTACTGTATATGTTGGGGCTACAT
CCGCCCGGTGCGGCACA--------AGTAGTCAGTTAACGATCCAAGCCATGGCGGCA---ATCCAGCAGCAGCAGCAGC
ACATGCCCCTTCTTCTCCTCACCTTCCTCCTCGCGGCGTCCACGGCGGCGGCCCGGCCTTCGTACGTCATCAAGTCGACG
TGCGTAGCGATCACCAACGCCACCGTGGGCACCCCCTACCGCTACTGCGTGCGCACGCTCTCCGCCGACCCGGCGGCCGC
GCCCGCCAGGGACGCCCGCGGGCTCGCCATTGCCGCCGCCAAGCTCACCGCCACCAACGTCTCGTCGACGTTGCACGTGC
TCAACCTGCTCGTGGACGCCCTCCAAAACTGCATCGCCACGTACCAATTCATGCAAGGGGACGTCGCCGGCGCGCTCGAC
GACCTCAGCGCCGGCCGCCTCGACGTGGCGTCGCAAAAGCTCAAGCGCGCCTCGTTCCAGCCGGATTTCTGCGAACTGGC
CATGATGGAGAGTGACACCGACAAGGATCCCGTGTCGGAGGAGAACGATGCTAACCAGTTGCTCTCCGGCATGGCGTACA
ACATCGCGGAACTCATCGCCAACAGGCGACCGCCGCCGCCAAGATGAAGAAGTAATGGC---------------------
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---------------------CGCTATAACCATGTAAATTTTTAGGAGATTCGTACGATTTTTCTTGGTTCTTTTGTTTT
TTATATGTTCCTTGGCTCATCTTTTTGTGATTTTTTTTTCCTAGATTCCTATAT---TTTTTTCGTGTCCAACTACAATT
GTATAGCCCGTCAGC-----------------------------------------------------------------
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---CACACAACGATCCCTTGTCGATCGCATGCTACTACAGCTGCACACGTGCCGGCCATGCAACAACAGTTGCGCATCCT
CTG-----------------------------------------------------------------------------
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-----------TTGACCATGCAACTGCAGTTGCACATCTCTCATTAGACGCGCAAAAAAATAGCGACAATAAAAGGCAAA
ATTAAGAAAAAAATTGATAAACATGAAGAAGAAGAAAAAAAAAGGCAAAACGTCCTATGTTGGTGTCAACTGAAGTGAGA
TTTAGTTAAACTCACTCGATCAACATCAACTTTGTTTCAATA--------------------------------------
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>SNPs
SSSSSSSSSSSSSSSSSS---S--------SS-----S----S----------------------S--------------
S--S------------S----------S-------------S---------------------S-S------S-------
---------------------------------S----------------------------------------------
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----------------S--------------SSSSSS-SSSSSSSSS-SSSSSSSSSS------------------S---
---SS-S--S-SSSSSS-S-S-S-S-S-SSSS-SSSSSSSSSS----SS---S--------S---------------S--
---SSSSSSSS--SSS----------S-------S-----S--S--S----------S-----------S----------
-------SS----S--S-----------------------SSSSS-SS-SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSS-----------S-----------------SSSSSSSSSSSSSSSSSSSSS-----------------------
---------S------------------------SSSSS-----------------------------------------
-----------------------------------------------------------S--------------------
------------S-----------------------------------------------------S-------------
S--------------------------------S---SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS--------------------------------------------
----------------SSSSSSSSS----S------------------------------------S-------------
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----------------------------------------------------------------------S---------
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-----------------------------------------------------S--------------------------
-------------------S----S---------------S-SSSSSS-SS-SSSSSSSSSSSSS------------S--
-S--------S----------------------S----------------------------S-----------------
---------S---------------------------------------------S--------S---------------
---------------S----------------------------------------------------------------
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-------------------------------------S----------S-----S-------------------------
------SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSS---------------------------------S---S--------------------S------S---
-S---SS-----------------------S--S-------------------------------S--------------
---------------------S--------------------SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSS
>forward_1404
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------------------------TCCATCCCTGACGCATATGC------------------------------------
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>reverse_3478
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-------------------------------------TGCACTAAAGTTGCACACGC-----------------------
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