>input_sequence_86250
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---------------------------------------------------------------------ATGAGCTCCAT
GGAGGTTCCAGTTGGCACGGGAGACCTCGCCGGCGAGTCGTGGCAGAAGTCATGGCCAGAGGTGGTGGGCAAGTCCATAA
AGGAGGCCAGGGAGATCATACTCAAAGACAAGCCCGACGCCGACATTGTCGTGCTGCCAGCTGGGTCACCGGTGACCCGG
GACTTGAGGCCCAACCGCGTGCGCATCTTCGTCGATATCGTCGCCGACACACCCTTCACAGGCTAG--------------
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>chr1B_1_TraesCS1B01G034000
TGATT---------------------------------------------------------------------------
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------CATGCCTGATAAGCTAGCTAACCAACCGTAGGGGTGTCGGCAACAGCGACGAAGATTTGGACACGGTCGGGCCT
TAAGTCCTGGGTCACCCACGCATCGACTGGCAGGACCTCTATCTCAGCATCAGGCTTGTCCCTGAGTATGATCTCCTTGG
CCTTCTCAACAGACATCCCGACGACCTCTGGCCACGACGTCTTCACACTGCTGGCTCCGGTGCCCCCTCCTGCAGGTTCT
GGAAACTTCCCAGTGCTTCCCTCCATGGAACTCATGTTCTTCAATGAACTATTGGATCAAGAGAAATAAAGCGGTAAGCA
TGTTATAAACCATGAGGGAAAATGGGTGAGCAAAAAAAATCGACCGGGCACACACTCACCAGAAGTACTGATTGAATGTT
CTAGACATGCAAGGAGAAGTTGATGATATAGCATCAACTTATTGTGTGGCATTTATACTAGTTATAGTTAACTAAGTTGA
GGAGCACTACAGCACCGGAAAACGGCTATGGTTCATTGAGCTCCTAGCTACAAGTCGATGGACCTGTGAATCACGTGGTA
TGCTGTCGTCTTCCTTAGCATCCGTACGTGTTATCCATCACGAAATCTAGTCCGGCCAATCAGCATCTTATCTCGTGTAT
CACGCGCCTTC-------CCCTGGGTA------------------CATGCATCTTCTCTGCACATAACACAGTGCCGCTT
ATATCGATCTCCCCTATAAGTACCCATCCATGCAATTGCAATGTGTTTATGCAGCACCAAGTTAGCAACCAGGCTCAGAA
GATTAAGAAACAAGCTTCTTGAGGTCCACTTAGCCGGTGAGTCGGATCACAAATACGTATC---CCATCTGAATTTTGTC
GATCAATCTTTAGCTAGCTAGCGTATTTTGCTTAATTAGAAACGCATCTTGCTATGGATGAATTAGTTTCAGTTTTGGTG
CTACTTTCTCTCTAAGACTGACCTATTTCTCGCTTTTGGAAAACTGATTTGTAGGCTGGTCCATCGACGATGAGCTCCAT
GGAGGTTCCAGTTGGCACGGGAGACCTCGCCGGCGAGTCGTGGCAGAAGTCATGGCCAGAGGTGGTGGGCAAGTCCATAA
AGGAGGCCAGGGAGATCATACTCAAAGACAAGCCCGACGCCGACATTGTCGTGCTGCCAGCTGGGTCACCGGTGACCCGG
GACTTGAGGCCCAACCGCGTGCGCATCTTCGTCGATATCGTCGCCGACACACCCTTCACAGGCTAGCTCTAGCTATGCAG
GCGCGAAGGAATGTATGCGTGCCCCATGCATGCACGCTCATGAATAAGTTTTAAGTAATGGATGAATAAATGCTAGCATG
TCGAGCATCAGCATGCCATGGGTTGGTGTAACTTTTCGTTTCGTCC----------------------------------
-ACTTATGTGTACTTTGTTTGTGCTCTGGACTAATTCCTGTTTGAAAGAGCACCAGGTTTGTAGTAT----CTTATTATC
CACAAAATTAGAGATTGGCATTGGCCTTCCTAGTCTTTCCACGCGGCAGTCCATTTGGTATCCTCTTTCAAACAACTTTG
TTCCTGTACGAACCATGCCTGCGTTCATGTTCCCTTTGATTCTTCCAAACATGGAGAGCGCCATATATACATGGATGAAA
GTCAGTTCCAAACTTG---------TCATCGTCAATGAGTTTTAGTTCCCCGCCAAAATTTGTCAATGAAACCATTTAGA
TCGAATATCAGCTTTTACAGTTGGTCTCTTGCGACCGGATCTTCATCACTTTCAAGTTGCTAGTGATGAACTAACTGGTT
ATAGAAATTAACATAGTCAATAGGTGATGAAACATCGATCCCACACCTCTAATGAAGCCGCACATTATAGTACTTTCATG
TTCTATGGTCATATCAATCTTTCATTTCTTGATTGCACTTGACAACTCATCTCTGGACTTACATAGCAATTCCTGAAAAT
TGAAGTACATAATGGGGGTTCGTACTTCACTAAATGGATTCCATAAAGATATATACTGCCACTAGATAAACATTCATTGC
CATGGAATTCTTAAAAACACACACATTGTTAGACGTATTGGTTCTGTACTCTATTAATACTCCATGTAATCTCAACCTCC
TTCTGTATCTCTTTAAAACTCTTGCCTAGCCTGATCAGATCAAGAATCGATCGACGCCTTGCTTGTACGCCACGACGAGG
GCTTCTCGTCATCAATAAATATACAGCACGCAGCTCCGTCTGGGAGTAGGAACGCTTCCAACTTTACATGGTAT
>chr1A_1
TTGCACACGGTCGGGCCTTACGTCCTAGGTTACTCACGCGTCGACCGGGAGGACCTCGATCTCGGCATCAGCCTTGTCCT
TGAGGATGATCTCCTTGGCCTTCTCGACGGACATCCCGACCACCTCCGATGTATTTGCACTAGTGGCTACGGTGCCTCCT
CCTGCAGGCCCTGGATACTTCACGCCTTTGCCTCCACGGAACTCATGTTCTTCAATGAACTCATAGATCAAGAAAATCGG
CGTGTTAAGCATGATATAATCACTGGGAAGAAATGGGTAGTTAAAATATGACAAGGCAGCACAGACTCACCTGAAGAATT
GATTGAATGTTCTAGCTGTGCAAGAAGGTGATGATATAGCATCGGCAACATTTATACAAGAGGATCTTGGTAATTAACTA
AGTTAAGGAGAAGTACACACTAGGAAGATGTTGCTACAAGTCGATTGACCCGTGAATCGCTTGGTATGCTGTCCTCTTCT
TTAGCGCCCGTACGTGTTATCCATCACGAAATCTAGTGCGGCCTATGAGCACCCTCTACCTCGTGTATCACGCGCCCCTT
GGGTGAATGCATGTGTAGATGTGCAAGCATCTTCTCTGCAGATACCTCATAGCTGCATCGCCGCATCTACCAATCTCCCC
TATAAATACGCATCTATATCTATATCTATATCATCTATATCACTATATAGTGTACGGATAATTTGGAATAAGAACCGTTG
GATGAAGCCGATCTGACGATAGAAACATGGCAAATCCGAGTGTTGCTGACCGTTGAATCTTCTCATTACTTCACTAGATT
TTGTTAAGTGTACTATCTAGAGGATTCTATGGTTGGACTTATACCATATGGACATTTTGCACAAAACTTAAAGTACACTT
CTACTTTATTCCAAACTCTTCCATACCCATACTCTCATAATTTTTTTTTCTGTCCAAACTGTCATTCATTTTTACTCTGT
ATTCAAGGCTATGTACTTTCATAAATCATACTTATCTTTGTAGATAGAACAATAGCTTTATATAGCCAGAATAGATACCT
AGACAAAACACACTCGATATATTGTTACGTGCTTTTGCATCTTATACATCACTAGTAATAATGTACGTGCAATGCATGTT
TATATTAGGTAGGATATTAGTTGCATGTTATATTAGGTAAGATATATCTGTTGCACGTTGATATTTGGTAAGATATTAAT
TACTTTTTTCGCGGGAATGGTAGGATATTAATTACATGGCAGATTTCATGAGCTGGCGTTGAGTCAAAACGTGTTTATAA
TCAATGGCAGTGGTGGGTAATTAGAGCGTTAAACGTGTTTAGTGCTCAACATTGGAGCGATTCGAACCACTAGATCACAT
GATATTTGACGGTTGAGATGGTTTGAATCTGCCCCTTTGGGTCTTTTTATATTGGTATAGATATAGATATATATGCCTCA
CAATTCCATTTCCTTGTTATAATTAATACAATAACAATATGTCTATCTTGGGTTGTAATTTGATAATATGAGCTCTGACG
TGCTATGCACGCATAACTTAGTACTTGTACTAAGTTATATGCTGATATCAACCAATCCACGATCAATTAACAAGCTCGAG
GTTTATTTAGCTACAACGTGAGTATCCCATCTAGCCTTTGTCAATCAATCTTTACCTAGTTAGCATTGGTAAATTTTGCT
TAGTTTGAAACACAGCTTGCTATTGCTAGCTCAGTGTATTGTTTTGTAGCGTGCCAGATCGACGATGAGCTCCATGGACG
ACACCACCCATGGAGGCCTCTTTGTTGAGGAATCGAAGTCGTGGCCGGAGGTGGTGGGGAAGTCCATCAAGGAGGCCGGG
GAGATCATTCTCAAGGACAAGCATGATGATGATATCGTCGTCCTCCCAGCAGGGGCACAGGTCGCCCTGGACTTGAGGCC
CAAATGTGTGCCCATCTTTGTCGACACCGTGGCCGAAACACCTTTTACTGGCTAGGCAGCTTTGTAGGCCAAGAGGAATG
TATGCCTGCACCATGCATGTTCGTGAATACATTTTTATCAATGAATGAATAAATGCAGGCATGTCGAGCAGTAGCATGGC
ATGGATCGCTACTTATGTGTATGTTTTTGCACTGTAATTTTAGTTTGATGAGAGAGTGGTAGATCCGAGTATTTGATTAA
CTCAATGTCGTCCTCAAAATTAGAGTGGCATGCGCAGATGAAGTCTATTTGGTGTCCCCTTCAACCGGATTCATACATGT
GGCTGGAAAAACCTATTTTAATGACTTAAGCTATAAAATGTCACCAAAACGCTTCTAGAGTTCTTACATGGACTGTGACC
ATGTCCGCTGTTGTTTTGTTTTGTTTTCTCCTTTTCCCCCTTTCTTTATCTTGTTTCCTTTCTCTTTCTGTTGGTTTTTC
TTTTCCTATTCTCCTACTTTTAGTTTCACTTTTTAAACATTTTTTGGTATGGTATTGTTTTTACTTTCTTTTTTCGTAAC
TACTTAAACCTTATTTCCAAAGTACACAAATGTATATCCAGAAATGTGTCAACAACTTAATGTGTTTTAATACGTGAACT
TTTCAAATACAAAGATGAGCCGGGGAAAGAAGGCTTGGCCAACATCCTCTCCATGAAGATCGTCATCATGGATGAAGCCT
ATCCAATCGACACGCCATGATACCATCATCATTAGAGACAACATCAAGTAGAAGTGGGGCCCTCCTTTACAATGGTAGGG
ACCACTTCAGAACCATTGGCCATTGTGTTCTCCCCGTCTGGCATCATTGACAAAAAGGAAATAATTTTCAACCATGTTAT
GGATTCTAATACCTAGCCAACCCAGTTGAAACGGTGTACGTCATAAACTATATGGTTTGGTGACGGTTGTTGCTTTTTCA
GATTGAAGGAAGCATACTTGATCTCCTTTTCAACTTGAAGAGTTCTACCTAGTTGGAAGCCCACTGCAACTCCTTAAGAA
ATTTAGCGATGATATTTTCAGGAACTCAGAAAATTAAGGAAAACATAATTGGCAGCATATAAAGGACTTTGCAGGATTTT
GGAGTGTCGATATTTTTGCTACGTTTTCCCCGAATGTCATTCGATGATGAAACTTTGCAAGCAATCAAACATTTGTCAAT
GTTTGGCACAAAAAGAGCCGCGTCCCTTTGCAGCATGCCTATCACATTAAAGTTACAGATAGTTGAAAGTTCATGTGAAA
GTGATAAAACATCATTATTTGTGCAACAGATAAAGCGGTTATGCTTCTTTGAGTACCGACGATGGTACTAGGATTTCTTC
TAGTGTCATATATTTATGATTTTGCCCTTGTTCGAGATTTAGGGTGACACATAACATTCAGTTACTGTAAGTAGTGACCA
ATTTGTGCTTAGATCCAAATAATATATTATCCCTCTTGTTGTTGTCGTCTTTTTGGATGTTTGCTCTAGGGAATACGATA
AATGACCGGCTAACCGATGTGAACAAACCTAAGGTTTAACGTGCCAACTCACAACTTGAAATTCCTGTCGAAAAGAAAAA
CTCGCAACATGAAATACTAGCACCACCGAGCATTCGGGCACATTCCCTGCCTAGTAAGAGTAATCTAGATGAAACAGAGA
GCGCAATTATACATGTCATGCCCAACATGTCATGGAAGAATACACTGAAGCCTGAACTTGGGCATGATTCGCTCATGCCC
AGCATGCCTTTATTCCTTATCAAAGAGAAAGTGCCTGCCTGATGTGCCAGATATCTTTATCCTCTGTTACATAATTATTA
ATGATTCATGCCTGATAAGCTAGCTAACCAACCGTAGGGGTGTCGGCAACAACGATGAAGATTTGGACACGGTCGGGCCT
TAAGTCCTGGGTGACCAACGCATCGACTAGCAGGACCTCTATCTCAGCATCAGGCTTGTCCTTGGCGATGATCTCCTTGG
CCTTCTCAACGGACATCCCGACGACCTCTGTCCATGACGTCTTCACACTGCTGGCTCCGGTGCCCCCACTTGCAGGCTCT
GGAAACTTCACAGTGCTTCCCTCCATGGAACTCATGTTCTTCAATGAACTCTTGGATCAAGAAAATAAAGC---------
----ATAAACCACGAGGGAAAATGGGTGAACAAAAAAAATCGACCAGGCACACACTCACCAGAAGAACTAATTGAATGTT
CTAAACATGTAAGGAGAAGTTGATGATATAGCATCAACTTATTGTGTGGCATTTATACTAGTTATAGTTAACTAAGTTGA
GGAGCACTACAGCACCGGAAAACGGCGATGGTACATTGAGCTCCTAGCTACAAGTCGATGGACCTGTGAATCACGTGGTA
TGCTGTCCTCTTCCTTAGCATCCGTACGTGTTATCCATCACGAAATCCAGTCCAGCCAATCAGCATCTTATCTCGTGTAT
CACGCGCCTTCTT----CCCCTCGGTACATGCATGCATGTGAGGGCATGCATCTTCTCTGCACACAACACAGTGTCGCTT
ATGTCGATCTCCCCTATAAGTACCCATCCATGCAA------AGTGTTTATGCAGCATCAAGATACCAACCAAGTTGAGAA
GATTAAGTAATAGG---CTTCAGGTCCATTCAGCCGGTGAGTCGGATCATAGATATACACATATCCATCTTGCTTTTGTC
GATCAATCTTTAGCTAACTAGCATATTTTGCTTAATTAGAAATGCAGCTTGCTATCAATCAATCGGTTTCAGTTTTGGTG
CTACTTTCTCTCTAAGACTGACCTGTTTCTCGCTTTTGGAAAATTGATTTGTAGGCTCGTCCATCAACGATGAGCTCCAC
AGATGTCCCAGCTAGCACCGACGGCCTCGCCGGTGAGTCGTGGCAGAAGTCATGGCCAGAGGTGGTGGGCAAGTCCATAA
AGGAGGCCAGAGAGATCATACTCAAAGACAAGCCTGACGCCGACATCGTCGTGCTGCCAGCCGGGTCGCCGGTGACCCGG
GACTTGAGGCCCAACCGCGTGCGCATCTTTGTCGATACCGTCGCCGACACACCCTTCACTGGCTAGCTCTAGCTTTACAA
GCGCGAAGAAATGTATGCGTGCCCCATCCATGCATGCGCATGAATAAGTTTTTAGTAATTGATGAATAAATGCTGGCATG
TCGAGCGTCAGCATGGCATGGATTTGTGTAACTTTTCGTTTCGTCT----------------------------------
-AC-----------------------------------------------------------------------------
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>chr1D_464
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----------------------------------------------------------------TAGTTAACTAAGTTGA
GAAGCACTGCAACTCCAGAAAACGGCTATGGTTC-------------CTACAAGTCGATTGACCCGTGAATCACGTGGTA
TGGTGTCGCCTTCCATAGCAGCAGTACGTGTAATCCATCACGAAATCCAGTCCAGCCAATCAGTATCTTATCTCGTGTAT
CACGCGCCCGCCCCTGGCCCCTGGGTACATGCATGCATGTGAGGGCATGCATCTTCTCTGCACATAACACACTGCCGCAT
ATATCGATGTCCCCTATAAGTAGACATCCATGCAA------TGTGTTTATGCAGTAGCAAGTTACCAACCAAGCTCAGAA
GATTAAGAAACAAGCTTCTTGAGGTCCATTTAGCCGGTGAGTCGGATCACAAATACATATC---CCATCTGAATTTTGTC
GATCAATCTTTAGCTAGCTAGCGTATTTGGCTT-ATTAGAAACGCATATTGCTATGGATGAATTAGTTTCAGTTTTGGTG
CTACTTTCACTGTAAGACTGACGTGTTTCTAGCTTTTGGAAAATTGATTTGTAGGCTGGTCCATCAACGATGAGCTCCAC
AGATGTCCCAGCTAGCACCGACAGCCTCGCCGGTGAGTCATGGCAGAAGTCATGGCCAGAGGTGGTGGGCAAGTCCATAA
AGGAGGCCAGAGAGATCATACTCAAAGACAAGCCCGACGCCGACATCGTCGTGCTGCCAGCCGGGTCGCCGGTGACCCGG
GACTTGAGGCCCAACCGCGTGCGCATCTTCGTCGATACCGTCGACGACACACCCTTCACTGGCTAGCTCTAGCTTTGCAA
GCGCGAAAAAATGTATGCGTGCCCCATCCATGCATGCGCATGAATAAGTTTTTAGTAATTGATGAATAAATGCTGGCATG
TCGAGCATCAGCATGGCATGGATTTGTGTAACTTTTCGTTCCGTCTTTTTTGTTTTGTTTTGTGAGAGAATCGTTTCATC
TACTTATGTGTACGTTGTTTGTGCTTTGGACTAGTTCCTGTTTGAAAGAGTACTAGGTTTGTATCTGAGTACTCATTATC
CACAAAATTAGAGAATGGCATGCGCTA-CCTAGTCCTTCCACGTGGCAGTCCATTTGGTATCCTCTTTGAAACAACTTTG
TTGCTGTACGAACCATGCATGCGTTCATGTTCCATTTGATTCTTCCAAACATGCAGAGCACCATATATACATAGATGACG
GTCAGTTCCAAATTCATCATCATCATCATCATCAGTGAGTTTTAGTTGCCCGCAGAATTTTATCACTGAAACCATTTAGA
TCGAATATCAGTTTTTACTGTTGGTCTCATGCGACCGGATCTTCATTGCTATGAAGTTGCTAGTGGTGAACTATCTCGTT
TTAGACACGTAGTCACCT----GGTGATAAAACATCGATCCCACACCTCTAATGAAGCCGCACATAATATTACTTCCATG
TTCTATGGTCATATCAATCTCCTATTTCCTGATTGCACTGGACAACTCATCTCTGGACTTGCATAGCAACTCCTAAAAAA
TGAAGTACTTAATGGGGGCTCGTACGTCACTAAATGGATTTCACAAAGATATATATTGTCACTAGTACACATTC--TTGC
AATGGAATTCTTAAAA-CACACACAT------------------------------------------------------
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>SNPs
-SSSS---------------------------------------------------------------------------
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---------------------------------------------------S---S------------------------
------------S---S-----------S--------------------------------S--SSS-------------
----------S-------------------S---S--------------------------------S-S------S---
---------S----------------------------------------S-----------S--SS--SSSSSSSSSSS
SSSS--------S----------------S---------------S-------------------S---S----------
---S-----S----------------------------------------------------------------------
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-----------------------------------------------S-----S--------------------------
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-----------------------------------SSSSSS---------------S-------S------S--------
----------------------------S---------------------------S-----------------------
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------------------------S------------------S---------------------S-------------S
S--S--S----S-S----S-SS-S---------S----------------------------------------------
----------S-----------------------------------S--------------S-----S------------
-------------------------------------S---------------------S--------------S----S
--------S------------------S------S--S--------------S------S--------------S-----
---------------S-----S--S--------------------S----------------------------------
-------------S-----------S-------S----------------S--S---------SSSS------S------
--------------S------SS--SSS-------S-------S------------------------S-----------
--S---------------S--------------S-------------------S-----S------------S-----SS
------------S-SS--------------S---S------------S-----SS--S---S---S--------------
-----------S------S---------S-----------------SS--S-S------------S-------S--S---
S----S-SSS-SSS-SSSSSSS------S------------------------------------S---S-----S----
--------------------SSS-----S----------S--------------------S--------S----S----S
--------S---------S------S--------------S--S-----------S--S------SSS-SSS-SSS----
S---------------S---------SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
>forward_4146
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----------------------------------------------GGCACACACTCACCAGAAGT--------------
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>reverse_6040
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---------------------------------------CTGGGAGTAGGAACGCTTCC---------------
