>input_sequence_80619
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---------------------------------------------------------------------ATGCTTCCTTC
GTCG---ACTGGTCCTGC---TGCTGCCGCGGCCTACACACAGCCGCAGCTGCGGCAGATGAGAGCGCAGTGCATCGTCT
TCCTTGCCTTCAAGTACGTTTTTCTTGG---GTAGCAA--------------GCAAGAACCGGCCGGCCGGGC--ATAAT
TCCCTTGTTTCTTTCATCTTGACA------------TG------------TGTGTGTGTTAGGAATCAGATGGAGCCCAG
GAAGCGGCACCTCGAGATCGCGCTCGGTGAGGATGACATCGACGGAGCCGGCTGGCACGGCGAGAC------GACGACGA
GCGAGCCTTCTCAAGCATCGTCGTCCTCTGCCGCACCGTTGCCGCTGCCACACCTCCTGC--------------------
---------CCGTCTCCTCGCTGCGGCTGTCTCCGCCGGT------GACGGAGCAGGAGCAGGAG------------AAT
CTCCACCGCAACGACGACCCTGAAGCA-----------------------------GAACATGAGTAA------------
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>chr2D_1_TraesCS2D01G554000
TTTCAGTTTTTTTGAATTTTGGTTAAATCTGGTCAAACTATGGTCAAACTACTTATTCAAGAAGTATTAGTGTTACTACA
TAATTATTCAAGAATATTAGTGTTACTAAATAATTATTTTAATTTTTTTGAATTTTGGTCAAATCTGGTCAAACTATGGT
CAAACTACTTACTCAAGAAATATTAGTGTTACTAAATAATTATTGTTTTTTAGAATAATAGTTTCAAACTCAAACAGTGA
AACGTGTGACTTCATGCTCAAGCTAAACTCCTGAGGGTTAATAGGATTGACATCTTACTATTGTCAGGAAAACAACAAGT
GCAGACTTGGAAATCAAAGAGAATAGAACCCGGAAGTAAAGCGTGCTCAGGCTGGAGTAGTGGCCTTTAGTCCCGGTTCG
TATAAGAACCGGGACTAGGGGGGGGGCCTTAGTAACGACCCTTTAGTCCCGGTTCCCTTATGAAGCGGGACTAATGGCCC
TTTTTCTACTAGTGATTCCTGTCTGATACGCAGTAGGTCAACCTGAAGATCTGTTGTTTCTTTATAATATTGAATCAATA
TCTTGTAGGAGTAGTATTTTTTTATGGTCTGATAGCTTGTTGGAGGCCGTCATTTAACTTGGTATCTTATCTTTCTTTTT
TTTGAGGGTCAACTTGGTGTTTATCTGTCGGTTTGTTCATCCAATCAACCATATCCTGTCAGCATTCAGCACTTGGCGTT
CAATAGATCTGCGTTGCTGCTGATGCAGTTATATCTGCTGCACGCCAGTGAAGAAGCCTATTCAGGTTCGCTGTTTTGGC
CTTTCCTTCTGGCTGCATTCTCATGTCACTGTCCCGGCAAATCGTGCTGATTCATTCAGCAATC----------------
---------TTGTAGTCTTGTCCTAGTGTGTGCGTGCCTTGTGATGAATAATACATTACGGTTGCAGATCCAAGAAGGAT
AGGAAGGCAAGGCAAGCAGATACT-GAACTCAACACAT---CAACAACACGGAGAACGGCCGAGCAGAGATGCTTCCTTC
GTCG---ACTGGTCCTGC---TGCTGCCGCGGCCTACACACAGCCGCAGCTGCGGCAGATGAGAGCGCAGTGCATCGTCT
TCCTTGCCTTCAAGTACGTTTTTCTTGG---GTAGCAA--------------GCAAGAACCGGCCGGCCGGGC--ATAAT
TCCCTTGTTTCTTTCATCTTGACA------------TG------------TGTGTGTGTTAGGAATCAGATGGAGCCCAG
GAAGCGGCACCTCGAGATCGCGCTCGGTGAGGATGACATCGACGGAGCCGGCTGGCACGGCGAGAC------GACGACGA
GCGAGCCTTCTCAAGCATCGTCGTCCTCTGCCGCACCGTTGCCGCTGCCACACCTCCTGC--------------------
---------CCGTCTCCTCGCTGCGGCTGTCTCCGCCGGT------GACGGAGCAGGAGCAGGAG------------AAT
CTCCACCGCAACGACGACCCTGAAGCAGAACATGAGTAATTGTTTTTTTTTTTGGTGAACATGAGTAATTGATGGTTGTA
TCCTCTTCTCCCCACCCCAGGACTGGGCCATCGACCAAAAATGAATGAGAGGCTCCTTTTGGATACAAA-GTGTTGTGCT
CACACATACCTACAACAACTTTGGTTAGCTTTCTACTCCCTCCGTTCGGATTTACTTGTCACAAAAATGGATGTATTTAG
ACGTATTTTAGTTTTGGATACATCCATTTCCGAGACAAGTAATTCCGAACGGAGGGAGTA-----GCTCATTAGTTTTGT
GTTTTGTCGCATCTTTGTAGTTCTTTGTGCGTT-GTGTATATCTAGCAAGGAGATGTAAACAAACGACATATCTGTT-AA
AATCTT--TATGTACAAGATATAGATTAGCTAAGCCGAATTGTGTACATCATCATGCATATTTTTCCGAACTGAACTACT
GAAGTACTCTTCCAAATGGTTGGTTGGTTCAACGCACAAGAAAAATACT----------CTGCAGAATAGTCTATTACTT
GTATATTGTGATGATATTTCATGCCTATATT----TTCTAATACTACGGTTTTTCGATACTATGGCTAAGAGTAAGGACA
ATGACGGCAGCCAGCTTAAAGAAAAATCCACACGACCTTTATAAGCTCATATAG-TTACACGGCGAGTGAAGTTAAGAGT
ATAGCGGAAAAAAAAGAGAGTAAGGAGAATGACAGGGACTAGTTTCAACAAAAATCCATATGAGCTTATGTTGTTACACG
GCGAATGAAGGTAAGAGTAAGGACCATGACGGGGACTAGTTTTCAATGACACCATTTCCTTAGACGCATATAAACGCCAA
TCAAAAGACATGTGAGGTTGTTTATATGGACATTCTATAAAGGTCGCAATGGCACACAAAAAGTT-ATCGTTTCTCTATG
GGTTTAGAAGAGCTTTGCCACACCTACATAAAATTCTTACATAACTTTACGAACGTGCTGACTTGGCCTGATTTGATTTG
AAGAAAAAAAAAGTTTTTTTAGGGT
>chr2B_647
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------GGTCAACTTGGTGTTTATCTGTTGGTTTGTTCATCCAATCAACCATATCCTGTCAGCATTCAGCACTTGGCGTT
CAATACATCTGCGTCGCTGCTGATGCATTTGTATATGCTGCACGCCAATGAAGAAGCCTATTCAGGTTTGCTGTTTTGGC
CTTTTCTCTTGGCTGCATTCTCATGTCACTGTCCCGGCA---------------------AATC----------------
---------TTGTAGTCTTGTCCTAGTGTGTGCGTGCCTTGTGATGAATAATACATTACGGTTGCAGATCCAAGAAGGAT
AGGAAGGCAAGGCAAGCAGATACT-GAACTCAACACAT---CAACACC---GAGAACGGCTGAGCAGAGATGCTTCCTTC
GACG---GCTCGCCCTGC---TACGGCGGCAGCCTACACGCAGCCGCAGCTGAGGCAGATGAGGGCGCAGTGCATCGTCT
TCCTTGCCTTCAAGTACGTTAT----GTTGGGCAGCAAGCATCTCAATCTCTGCAGG--------------------AAT
TCCGTTGTTTCTTTCTTTCATCTTCACATGTGTGTGTG------------TGTGTGTGCTAGGAACCAGATGGAGCCCAG
GAAGCGGCACCTAGAGATCGCGCTCGGTGAGGATGAGATCGGCGGAGCCGGCTGCCAAGGCGAGA---CGACGACGAAGA
GCTCGCCTTCTCAAGCCTCGCCGTCCCCTGCCGCACCGTTGCCGCTGCCACTGTCCCCTCGCTGCGGTTGTCCCCTCGCT
GCACCGTTACCGTCTCCTCGCTGCGGCTGTCCCCGCCGGT------GACGGAGCAGGAGCAGGAG------------AAT
CGCGAACACAACGACAACCCTGCAGCA-----------------------------GAACATGAGTAATTGAAGGTTGTA
TCCTCTTCTCCCA------------------CGACCAAAAATGAATGTGAGGCTCCTTTTGGATACAAAAGTGTTGTTCT
CATACATACGTATAACAACTTTGATTAGCCTTGTCAT--ACATAGATATAACAACTTTGGTTAGCTTTC-----------
----------------------------------------------------------TATAGTAGCTCATTACTTTTAT
CATCGCATC-----TTGTAGATCTTTCTGCGTTTGTGTATATCTAGCGAGGAGATGCAAACAAACGACAAATCTGTAAAA
AATCTT--TACGTACAAGATATAGATTAGTTAAGCCGAATTGTGTGCACCATCATGCATATTTGTCGGAACTGAAGTACT
--------CTTCCAAATGGTTGGTTAGTTCAACGCACAAGAAAAATACTCTAATATATACTGCAGAATAGTCTAGTACTT
GTATATTGTGATGATATTTCATGCCTATATATATGTTCTAATACTATGGTTTTTTGATACTGTGGCTAAGAGTATGGACG
ATGACGGGGGCCAGCTTAAAGAAAAACCCACATGACCTTTATAAGCCCATATAGTTTACACGGCGAATGAAGTTAAGAGT
ATAGCGGAAACAAAAAAGGGTAAAGAGAATGACGGGGACTAGTTTAAACAAAAATCCATATGAGCTTATATTGTTACACG
GCGAACGAGGTTAAGAGTAAGGACTATGACGGGGAGTAGTTTGCAATGACACCATTTCCTTAGGCGCATATAAACGCCAA
TCAAAAGACGTGTGATGTTGTTTATATGGACATTCTAGAGAGGTCGCAATGGCACACAAAAAGTT-ATCGTTTCTCTATG
GGTTTAGAAGAGCTTTG---------------------------------------------------------------
-------------------------
>chr2A_760
GCACG---------------------------------------------------------------------------
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---------------------------------------------CAATGAAGAAGCCTATTCAGGTTTGCTGTTTTGGC
CTTTTCTCTTGGCTGCATTCTCATGTCACTGTCCCGGCA---------------------AATCGTGCTGATTCATTCAG
CGAATGATCTTGTAGTCTTCTCCA------------------------------------GTTGCAGATCCAAGGAGGGG
AGGATAACTAGGCAAGCATACTGAAGAACTCACAACATGAACAACACC---GCGCACGGCCGAGCAGGGATGCTTCCTTG
GTCGTGGGCCCGCCCTGC---AGGTGCCGCGGCCTTGACGGCGCCGCAGCTGAGGCAGATGAGGGCGCAGTGCCTCGTCT
TCCTCGCCTTCAAGTACGTTATTACTGTTGGGTAGCAAGCATCTCACTCTCTGCAAG--------------------AAT
TCCGTTGTTTCTTTCATTCATCTCGTCGTGCGTGTGTGATTAACTGATTATATATGTGCCAGGAACCAGATGGAGCCCAG
GAAGCGGCACCTCGAGGTCGCGCTCGGTGAGGATGAGAACGACGGAGCCGGCTGCCACGGCGAGACGCCGACGACGACGA
GCTCGCCTTCTCAAGCCTCGTCGTCCTCTGCCGCACCGTTGCCGCTGCCACACCTCCTGC--------------------
---------CCATCTCCTCGCTGCGGCTGTCCCCGCCCGT------GACGGAGCAGGAGCAGGAGCAGGAGCAGGAGAAT
CGCCACCGCAACGACGACCCGGAAGCA-----------------------------GAACATGAGTAATTGATGGTTGTA
TCCTCTTTCT----CCCCACGACTGGGCCATCGACCAAAAATGAATGAGAGGCTCCTTTTGGATACAAA-GTGTTGTTCT
CATACATACCTATAACAACTTTGATTAGCCTTCTCATACACACACACATATAAACTTTGGTTAGCTTTC-----------
----------------------------------------------------------TA-----GCTCATTAGTTTTGT
GTTTTGTCGCATCTTTGTAGGTCTTTGTGCGTT-GTGTATATCTAGCGAGGAGATGCAAACAAACGACATATCTGTT-AA
AATCTTTATATGTACAAGATATAGATTAGCTAAGCCGAATTGTGTACACCATCACGCATATTTGTCCAAACTGAAGTACT
--------CTTCCAAATGGTTGGTTAGTTCAACGCACAAGAAAAATACTCA-------ACTGCAGAATAGTCTAGTACTT
GTATATTGTGATGATATTTCATGCCTATATG----TTGTAACAC--TGGTTTTTTGATACTATGGCTAAGAGTAAGGACG
ATGACGGCGGCCAGCTTAAAGAAAAATCTACATGACCTTTATAAGCTCATATAG-TTACACGGCGAATGAAGTTAAGAGT
ATAGCGGG--AAAAGAAGAGTAAGGAGAATGAC-GGGACTAGTTTAAACAAAAATCCATATGAGCTTATATTGTTACACG
GCGAATGAAGTTAAGAGTAAGGACCATGACAGGGACTAGTTTTCAATGACACCATTTCCTTAGACGCATATAAACGCCAA
TCAAAAGACATGTGAGGTTGTTTATATGGACATTCTAGAAAGGTCGCAATGGCACACAAAAAGTTGATCTTTTCTCTA--
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>chr2D_795
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--------------------------------------------------------------------------TTTGGC
CTTTTCTCTTGGCTGCATTCTCATGTCACTGTCCCGGCAAATCGTGCTGGTTCATTCAGCAATC----------------
---------TTGTAGTCTTGTCCTAGTGTGTGCGTGCCTTGTGATGAATAATACATTACCGCTGCAGATCCAAGAAGGAT
AGGAAGGCAAGGCAAGCAGATACT-GAACTCAACACAT---CAACACC---GAGAACGGCTGAGCAGAGATGCTTCCTTC
GACG---GCTCAGCTTGC---TGCGGCGGCGGCCTTGACGCAGCCGCAGCTGAGGCAGATGAGGGCGCAGTGCATCGTCT
TCCTTGCCTTCAAGTACGTTATTCTTGGCCGGTAGCAAGCATCTCAATCTCTGCAGG--------------------AAT
TCCGTTGTTTCTTTCATCTTGACA------------TG------------TGTGTGTGATAGGAACCAGATGGAGCCCAG
GAAGCGGCACCTCGACATCGCGCTCGGTGAGGATGACATCGACGGGGCCGGCTGCCACGGCGAGA------CGACGACGA
GCTCGCCTTCTCAAGCCTCGTCGTCCTCTGCTGCACCGTTGCCGCTGCTCCACCTCCTGC--------------------
---------CCATCTCCTCGCTGCGGCTGTCTCCGCCGGT------GACGGAGCAGGAGCAGGAG------------AAT
CGCCACCGCAACGACGACCCTGAAGCA-----------------------------AAGCACGAGTAGTTGATT------
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>chr2B_922
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------------------------------------------------------------------GATCCAAGAAGGAT
AGGAAGGCAAGGCAAGCAGATACT-GAACTCAACACAT---CAACACC---GAGAACGGCTGAGCAGAGATGCTTCCTTC
GACG---GCTCGCCCTGCAGGTGCCGCGGCGGCCTACACGCAGCCGCAGCTGAGGCAGATGAGGGCGCAGTGCCTCGTCT
TCCTTGCCTTCAAGTACGTTATTCTTGGCCGGTAGCAAGCATCTCAATCTCTGCAAGAAACGGCCGGCGGGGCATATAAT
TCCCTTGTTTCTTTCCTCTTGACA------------TGT-----------TGTGTGTGCTAGGAACCAGATGGAGCCCAG
GAAGCGGCACCTCGAGATCGCGCTCGGTGAGGATGACATCGACGGAGCCGGCTGCCACGGCGAGACGACGACGACGAGCT
CA---CCTTCTCAAGCCTCGTCGTCCTCTGCCGCACCGTTGCCGCTGCCCCACCTTCTGC--------------------
---------CCATCTCCTCGCTGCGGCTGTCTCCGCCGCCGTCGGAGACGGAGCAGGAGCAGGAGCAGTT------GAGT
CACCACCGCAACGACGACCCTGAAGCA-----------------------------------------------------
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>SNPs
SSS-SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSS----------------------S---------------------------------------------------
-----S--------S------------S--S---S------------S--------------------S-----------
----S--SS----------------------------------------S------------------------------
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----------------------------------------------S-SSS-----------------------------
-------S--S-S--------------------------S------------S----------S----------------
--------------------S--------------------------------------S--------S-----------
----------------------------------------------------------S------S--------------
------------------------------------------------------S-------------------------
--SS------------S---------------------------------------------------------------
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-S-------------------------SSSSSSSSSSSSSSSSSSSSSSSSSSSSS------------------------
------------SS-----S---------------------------------------------------------S--
--S---------S----------S-----S----SS-S-SSS-SSS-SS--SS----SSSSS-SSSS-SSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS----------------------
--------------------S--------------------------S--------S-----------------------
------------------------------------------------S--------------S-----------S----
SSSSSSSS-----------------S------------------------------------------------S-----
------------------------------S---------------S-------S------------------------S
--------S-----------------------S---------------------------------S-------------
---------------S-----------------S-----------S-----------------------S----------
----------S---------------------------------------------------------------------
-------------------------------------S------------------------------------------
-----------------SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSS
>forward_422
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--TAAGAACCGGGACTAGGGGG----------------------------------------------------------
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>reverse_2160
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-------------------------------------------------------------------------------A
ATGACGGCAGCCAGCTTAA-------------------------------------------------------------
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