>input_sequence_75992
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-ATGGCGGCGGCGATCCAGCAACAGCAGCAGCACATGTCCCTTCTTCTCCTCACCTTCCTCCTCGCGGCGTCCACGGCGG
CGGCCCGGCCTTCGTACGTCATCAAGTCGACGTGCGTAGTGATCACCAACGCCACCGTGGGCACCCCCTACCGCTACTGC
GTGCGCACGCTTTCCGCCGACCCGGCGGCCGCGCCCGCCACGGACGCCCGCGGGCTCGCCATTGCCGCCGCCAAGCTCAC
CGCCACCAACGTCTCGTCGACGTTGCACTTGCTCAACCTGCTCGTGGACGCCCTCCAAAACTGCATCGTCACGTACCAAT
TCATGCAAGGGGACGTCGCCGGCGCGCTCGACGACCTCAGCGCCGGCCGCCTCGACGTGGCGTCGCCCAAGCTCAAGAGC
GCATCGTTCCAGCCAGATTTCTGCGAACTGGCCATGATGGAGAGTGACACCAACAAGGATCCCGTGTCGGAGGAGAACAA
TGCTAACCAGTTGGTCTCCGGCATGGCGTACAACATCGCGGAACTCGTCGCCAACAGGCGACCGCCGCCGCCAAGATGA-
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>chr3B_1_TraesCS3B01G087700
TATTTTTCCAATACATGTCAATTTTTTTGATAAACATTATAAATCTTTCTTATACATGTTTAACA--TTTAATACACGTT
GAACATTTCTCAAATACATGATGAACATTTCTCCAAGTACAGATTAAATTGTTTTTCTCAAAAAAATCTAGAAAATTCAG
ATACACAATTTAAAAATTAACAGTATGAAACATTTTGAACTATGTGAACATTTATTTACACTGTATAAATATTTTTTATG
TCCAGAACATATTCTTGGAACGTGTGAAATTTTGTTTTGAATTAGATGAAACATTTATTTTAGATATACCAATATATTTT
TTACATTACACAAGCGGTTTTTAAAAATGTGATGAACTCATGTGAAC-ATTTTTTTAACGGCGCTGTTTTT-TTATTACG
CACATATTTTTTAACATTTGTTGAAAAAAA------AAATGTAACATTTTTTTTAAAACACATCCACATTTTTAAAATGT
CAGGAAGCAATTTTTTG-ATGCTATCTATCTTTTCTAAAAGTTGTGTAAACAAAATGTTGACACTTCATGAACATTCTGT
AAGTTCACGATGGACATTTTCAAAAATTGGCTAATGTGATGTTTGAAATATATGTATTTGGAAATATAAACAAAATAGAA
AAAAGAAAAAGAAAAAATAAACTAACAAACAAAGAAATGAAGGAGCGCGCGGCTCCTCCCTCCCACGG-----CAGATCG
AGCGTGCTACCGGCGATCACCGCCATCCGTTCCATTAACCCAGCATCTCGCTCGCTTCTACGCCCTGGAATAA----CCG
TAGGAAATGGCCGTGCCGTGGCGTGCCGTCCGGTGATCCAGGCATCGTCACTTGGACTGGC------TCCCAACAAAACA
AAGATTGGTTGCTCCTAAGATCGATCCCGGCCTCCCGTCAACCAACCAACTACTACTCCATCCCTCACGTCGC-------
--------------------------------------------------------------------ATATGCATGCCT
GCATGCAAGC-----ATATGTTGGG-CTACATCCCTCACGT------CA--------AGTGGTTAGTTGGCGACCGAAGC
CATGGCGGCGGCGATCCAGCAACAGCAGCAGCACATGTCCCTTCTTCTCCTCACCTTCCTCCTCGCGGCGTCCACGGCGG
CGGCCCGGCCTTCGTACGTCATCAAGTCGACGTGCGTAGTGATCACCAACGCCACCGTGGGCACCCCCTACCGCTACTGC
GTGCGCACGCTTTCCGCCGACCCGGCGGCCGCGCCCGCCACGGACGCCCGCGGGCTCGCCATTGCCGCCGCCAAGCTCAC
CGCCACCAACGTCTCGTCGACGTTGCACTTGCTCAACCTGCTCGTGGACGCCCTCCAAAACTGCATCGTCACGTACCAAT
TCATGCAAGGGGACGTCGCCGGCGCGCTCGACGACCTCAGCGCCGGCCGCCTCGACGTGGCGTCGCCCAAGCTCAAGAGC
GCATCGTTCCAGCCAGATTTCTGCGAACTGGCCATGATGGAGAGTGACACCAACAAGGATCCCGTGTCGGAGGAGAACAA
TGCTAACCAGTTGGTCTCCGGCATGGCGTACAACATCGCGGAACTCGTCGCCAACAGGCGACCGCCGCCGCCAAGATGAA
GAAGTAATGGTGGTTATTACATTAGTCTTGTCTTGTGGGTAACCAAGTTTATTTTTAATTTCATTACTTTGTCACAGTTA
TGTTGT-----------AACGGATTTACTGATTAACAATTAAATCTCAGTCAACGCTATAAACATGTAATTTTTTTGGAG
ATTCATACGATTTTT-TTTGTCCTTTTGTTTTTTATGTTCCTTGGCACATCTTTTGTGTCGTTTTTTTCTTACATTCCTA
GTGTTCTTTTTTTTATGTGCCCATCAGCCACACAACCAGGGGCGGAGCCCTGGAATTTTGGACCGGCCCATATACCATAT
AGGTGGGCTAGAGAAAAGAAAAAAAAAGCAAACAACGCACGCACCACGCAGCCTGCAGCAGACGCGAGAAACAGTGAGAC
GCGACTGAATCTTCTAACCCACTATGCCCAGCCGCCGGACGCCCCATCTCCGCCAGCCTCGCTG-CCTCGCCGGCCGACA
GACGCCGAACCGCTCAGGA-------GGCTCCTCCACTCCTTCCTTTTCCTCGCGCCTACCGCCTGCCCAGCACTCGGCG
CCAGCCGCACCACATACGAATCTGCGACCCGACCCTGCCCTACCACCGGCCGCCTGGCGCCCTGCAGGTGCAAGCCGGCG
ATAGCCGTCCTGCCGCATTCTGGCACTCGCCTGGCCTGATTTGAGGTACCATCTCCAGCAGCTCGCCAATGGGCCATTCC
CCAATTTTCAATTCAGGGTTTTCTATTTGCTTATCGTGCACAGTACTATATTACATGAACGACGAACATACACATAGTTT
TGCACATCATTTATGTCCAGTTATGTCATTGTGGTTTATAGAAAGTAAATTCTTATTATAGAATTATTGAAGCATAGTTA
TCTTTAACTTTTCAGGGTATGTACTTAGAGCCTGTTCGGACTCTCTCCCCGCTCCAACTCCGCTCTGGAGCGGAGCAGCA
TCCAGTTCAATTTTTCAAAGTCACTCAAGGGCCACTCTGCGCGCTCCGCTCCATGCCGT
>chr3A_3
--TTTTTCCAATACATGTCATCTTTTCCGATAAACGTTATAAATCTTTCTTATACACGTTTAACATTTTTAATACACGTT
GAACATTTCTCAAATACATGATGAACATTTCTCCAAGTACAGATTAAATTGTTTTTCTCAAAAAT-TCTAGAAAGTTCAA
ATACACAATTTAAA-ATTAACAGTATGAAACATTTTGAACTATGTGAACATTTATTTACACTGTATAAATATTTTTGATG
TCAAGAACATATTCT----ACGTGTGGACATTTTTTTTGA---AGATGAAACATTTATTTTAGATATACCAATATATTTT
TTACATTACATAAGTGGTTTTTAAAAATGTCATGAAATCGTGCGAACGATTTTTTTAATGGCACAAAAAAAATTATTACG
CACATATTTTTTAACACTTTTCGAAAAAAAATATTGAAATTTAACATTTTTTT---AACACATCCACATTTTCAAAATGT
CAGGAAGCAATTTTTTTCATGTTATCTATCTTTTCTAAAAGTTGCGTAAAAAAACATTTGACACTTCATGAACATTCTGT
AAATTCACGATGGACATTTTC-AAAACTGGCTAATGTAATGTTTGAAATATATGTATTTCGGAAAATAAACAAAATAGA-
AAAAGAAAAAGAAAAAATAAACTGACAAACAAAGAAATAAAGGAGCGCGCGGCTCCTCCCTCCCACGG-----CAGATCG
AGCGTGCTACCGGCGATCACCGCCATCCGTTCCACTAACCCAGCATCTCGCTCGCTTCTACGCCCTGGAATTAATAGCCG
TAGGAAATGGC----------CGTGCCGTCCGGTGATCCAGACATCGTAACTTGGACTGCCTCCCAATCCCAACAAAACA
AAGATTGGTTGCTCCTAAGATCGG--------------------------------------------------------
--------------------------------------------------------------------ATATGCATGCCT
GCATGCAAGTACTGTATATGTTGGGGCTACATCCGCCCGGTGCGGCACA--------AGTAGTCAGTTAACGATCCAAGC
CAT---GGCGGCAATCCAGCAGCAGCAGCAGCACATGCCCCTTCTTCTCCTCACCTTCCTCCTCGCGGCGTCCACGGCGG
CGGCCCGGCCTTCGTACGTCATCAAGTCGACGTGCGTAGCGATCACCAACGCCACCGTGGGCACCCCCTACCGCTACTGC
GTGCGCACGCTCTCCGCCGACCCGGCGGCCGCGCCCGCCAGGGACGCCCGCGGGCTCGCCATTGCCGCCGCCAAGCTCAC
CGCCACCAACGTCTCGTCGACGTTGCACGTGCTCAACCTGCTCGTGGACGCCCTCCAAAACTGCATCGCCACGTACCAAT
TCATGCAAGGGGACGTCGCCGGCGCGCTCGACGACCTCAGCGCCGGCCGCCTCGACGTGGCGTCGCAAAAGCTCAAGCGC
GCCTCGTTCCAGCCGGATTTCTGCGAACTGGCCATGATGGAGAGTGACACCGACAAGGATCCCGTGTCGGAGGAGAACGA
TGCTAACCAGTTGCTCTCCGGCATGGCGTACAACATCGCGGAACTCATCGCCAACAGGCGACCGCCGCCGCCAAGATGAA
GAAGTAATGG----------------------------------------------------------------------
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>chr3D_639
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---------AGAAAAAATAAACTAACA-ACAAAGAAATGAATGAGCGCGCGGCTCCTCCCTCCCACGGGCAGGCAGATCG
AGCGTGCTACCGGCGATCACCGCCATCCGTTCCATTAACCCAGCATCTCGCTCGCTTC------------------GCCG
TAGGAAATGGCGGTGCCGTGGCGTGCCGTCCGGTGATCCAGGCACCGTCACTTGGACTGGC------TCCCAACAAAACA
AAGATTGGTTGCTCCTAATATCGATCCCGGCCACCCGTCAACCAACCAA---CTACTCCATCCCTGACGCATATGCATGT
CTGGATTTTGGCCACAAGCATCTTTCAGATGTAGAGGCCGGGGTGAGCCTCCTTTTCTATAAAAAAAAATATGCATGCCT
GCATGCAAGC-----ATATGTTGGGGCTACATCCGCCCGGTGCGGCACGACCGCACGAGTAATCAGTTAACGATCCAAGC
CAT---GGCGGCGATCCACCAGCAGCAGCAGCACATGCCCCTTCTTCTCCTCACCTTCCTCCTCGCGGCGTCCACGGCGG
CGGCCCGGCCTTCGTACGTCATCAAGTCGACGTGCGTAGCGATCACCAACGCCACCGTGGGCACCCCCTACCGCTACTGC
GTGCGCACGCTCGCCGCCGACCCGGCGGCCGCGCCCGCCAGGGACGCCCGCGGGCTCGCCATTGCCGCCGCCAAGCTCAC
CGCCACCAACGTCTCGTCGACGCTGCACGTGCTCAACCTGCTCGTGGACGCCCTCCAAAACTGCATCGTCACGTACCAAT
TCATGCAAGGGGACGTCGCCGGCGCGCTCGACGACCTCAGCGCCGGCCGCCTCGACGTGGCGTCGCCCAAGCTCAAGCGC
GCCTCGTTCCAGCCGGATTTCTGCGAACTGGCCATGATGGAGAGTGACACCGACAAGGATCCCGTGTCGGAGGAGAACGA
TGCTAACCAGTTGCTCTCCGGCATGGCGTACAACATCGCGGAACTCATCGCCAACAGGCGACCGCCGCCGCCAAGATGAA
GAAGTGATGGTGGTTATTACATTAGTCTTGTCTTGTGGGTAACCAAGTTTAGTTTTCATTTCATTACTTTGTTAGGAGAT
TCGTACGATTGGAGGAGAACGGATTTACTAATTCACAATTAAGTCTCAGTCAACGCTATAACCATCTAAATTTTTAGGAG
ATTCGTACGATTTTCCTTTGTTCTTTTGTTTTTTATGTTTCTTGGCTCATCTTTTTTGT--TTTTTTTCTTAGATTCCTA
TTTTCCTTTTTT--------------------------------------------------------------------
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>chr7D_1897
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-----------------------------AAAGAACGCACGCACCACGCAGCCTGCACCAGACGCGAGAAACAGCGAGAC
GAAACTGAATCTTCTACCCC-CTACGCCCAGCCACCGGCCGCCCCGTCTCCGCCAGCGTCGCCGCCCTCGCCGGTCGACG
GACGCCCAACCGCTCAGGACTTAGGAGGCTCCTCCACTCCTTCCTCTTCGTCGCGCCTGCCGCCTGCCAGGCGCTCGGCG
CCAGCCGCACCCCATACGAGCCTGCGACTCGACCCTGTCCTGCCACCGGCCGCCTGGCGCCCTGCAAGCCGCCCAGTAGC
TCGCTGTTT----------------CTCGCGCGGCCTGATTTGAGGTACCATCTCCAGTAGCTCGCCAATGGACAATTCC
CCAATTTTCAATT----------TATTTGTTTATCGTGTACTACAG-----TACATGAGCGACGAACATACACATAGTTT
TGCACATCATTCATGTCCATTTATGTCATTGTGATTCATAGAATGTAAATTCTTATTATAGAATTATTGAAACATAGTCA
TCTTTAACCTTTCAGGGTATGTACTATAG---------------------------------------------------
-----------------------------------------------------------
>SNPs
SS------------------SS----SS-------S--------------------S-----------------------
----------------------------------------------------------------SS--------S----S
--------------S-------------------------------------------------------------S---
--S------------SSSS-------S-SS---S------SSS-------------------------------------
----------S---S---------------S-----S--S--S---------------S---S-SSSSSSS---------
----------------S--S-S------------------S------------SSS----------------S-------
----------------S----S----------------------S-----S---SSS-----------------------
--S------------------S----S----------S---------------------S-S--S--------------S
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-----------------------------------------------------------------------S--------
-----------S--------------------------------------------------------------------
--------------------------------S----------------SSS-------------S---SSSS-------
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----------------------------------SS-SS---------------------S--S----SS---S-S----
---SSS---------------S---------------S------------------------------------------
---------------------------------------S----------------------------------------
-----------S----------------------------S---------------------------------------
----------------------------S---------------------------------------------------
-----------------------------------------------------------------------------S--
--S-----------S------------------------------------S--------------------------S-
-------------S--------------------------------S---------------------------------
---------------------------------------------------S----S---------------S-SSSSSS
-SS-SS-----------------------S---S--------S------------------S---S---S-----S----
----S---------S------S-----------------S------S--------S---SS-----------S-------
S-S-S-------SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSS---S------------------------S----------------S-----
-SS-------------S---S---S--------S----S------S-----------S----S-----------S----S
------S--------------------------------------S---S--------S---------SS--S-------
-----------S-------SS-------S--------S---S------------------------S-SSSSSSSSSSSS
SSSSSSS-SSSSSSSSSSSSSSSSS-----SS--------------------------S-------------S-S-----
-------------SSSSSSSSSS------S--------S--SSS-SSSSSS-------S---------------------
-----------S-------S-------------S--S------S---------------------------S------S-
--------S----------------SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
>forward_931
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-------------------------------CTCCCGTCAACCAACCAACT-----------------------------
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>reverse_2252
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-----------ACATACGAATCTGCGACCCG-------------------------------------------------
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