>input_sequence_81364
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-------------------------------------------------------------------ATGGGCCCCGACG
AGCTCCCCAAGGCCGCCGCCGCCGGTGCCGACGAGATTTCCCCGTTCTCCTTCAGCATCTGGCCGCCGACGCAGCGGACG
CGGGACGCCGTGGTGCGGCGCCTGGTGGACACCCTGGCCGGCGACACCCTCCTCTGCAAGCGCTACGGCGCCGTGCCGGC
CGCCGACGCCGAGCCCGCCGCGCGCGCCATCGAGGCCGAGGCCTTCGACGCCGCCGCCGTCACCGGCGGGGCCGCCGCCT
CCGTCGAGGAGGGCATCGAGGCGCTGCAGCTCTACTCCAAGGAGGTCAGCCGCCGCCTCCTCGACTTCGTCAAGTCCCGC
TCCGCCGCGGCCAAGGCCGAGCCGCCGTCCGAGGAGGCAACCGCCGTCAAGGAGGAGACCTCCGAGGCCTGA--------
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>chr4D_1_TraesCS4D01G253000
TGCGAGGAAGAGAAGTACACACTGGTAGCCGACGTCCGCCCATCCGCGGGAGAGCAGCACGAGAGAGATGTGAACGGGGA
AGAAGATGATGTGTTGACCCACGCTACCATGAGAGAGCGAGTTCTTGGCTAGGATTTTGCTTTTCCCAGTATGGCAAACA
AATCCAGGGTTCAGATAAAATGGGATCAAAGAGGTCAGGATACGGACTTCAGGGTTTTGAAGGTTAGGGTTCGTTTTGCG
TCGCCCTCTACAACTTCAGGCTTTGTTTTAGACTTCACTCGCGACGAGATGGCATGCAGAAATGCGAGTGCGTCCAAGCT
CCAGAGGCGACACGACAGGGGCGTCGGTGCAAACAGAGAGACGGACTGATCTGGGGGCAACTGGGCCGCGTGCACGTCAA
AAATGTGCCACCGTACCATGTGTAGGCCGACCAGTTACGGCCAGGCCCAGCTAATGAGACAAGGTATGTGGCAATTGGCA
AGAGGTCAAGAGCCCAAGAGTGGCACTGCTACTGTCATTGGAAGGAATTGAACCGATTCAAAAATACCGTAGTATCTTCA
AGGCTATAAATGCTCCCCGATCATATCTCATCATCCCACGATCTTATCCCGATCCACCCAGATTTCCTACCATTCCCGGT
CCGATTCGAACGTTGCGAAATTCAAACCTCCAAC---------GAGGAAGCCGTACACGGGCCAACAACAAACCCACCAT
TAAAAAAGGCCACCAACCGACGCCACATCCTCCTCCAGAAGAGAACAATCTCCTCCCTCCCTTTCCGTGGCACGCGGCCG
CGAGAGG--------CCTCTTCCCTTTCTTGAAGCCACGGCAACCCCCCGAACAAACCCTCAATTACAACGACGCACCAC
CGCACCGCACCCCATCT------CCATCGCCACCGCTTTTAAATCCCCA---CCGCGAACGGATCGAACGGCCGGCCTAC
CCACCCCACCCCCCTACCCGTCAGCCTAGGGTTTTGAGT-CCGACGCCTCCGCCTCCGCCGCGCACCATGGGCCCCGACG
AGCTCCCCAAGGCCGCCGCCGCCGGTGCCGACGAGATTTCCCCGTTCTCCTTCAGCATCTGGCCGCCGACGCAGCGGACG
CGGGACGCCGTGGTGCGGCGCCTGGTGGACACCCTGGCCGGCGACACCCTCCTCTGCAAGCGCTACGGCGCCGTGCCGGC
CGCCGACGCCGAGCCCGCCGCGCGCGCCATCGAGGCCGAGGCCTTCGACGCCGCCGCCGTCACCGGCGGGGCCGCCGCCT
CCGTCGAGGAGGGCATCGAGGCGCTGCAGCTCTACTCCAAGGAGGTCAGCCGCCGCCTCCTCGACTTCGTCAAGTCCCGC
TCCGCCGCGGCCAAGGCCGAGCCGCCGTCCGAGGAGGCAACCGCCGTCAAGGAGGAGACCTCCGAGGCCTGAGCCCCGAC
CGAGGACA-TTCGTTTCGATTATGCTTCGAGATAAAATTCATTTACATCTAGAGTTCGTGTGC-------GGCGTTGGCC
TCTGCTTGGGATGAGTTGCCTGTAGGTTGTTCGCGTGCCTGTGCTGTTATTGTTCTTTCAGTAGCTGCTGGTTACCCCCC
TTTTTTTAGTGTGTTCGTTAATTACTTCTGTTTGTATCTGTGAACAAGAATTATCTTCACCTTGTCGTGGCAATGAT-CA
AGATTTCACCGGAATATCTGTCACCAAGCCTTTCAGATCAATACATATTTTGT---------------------AATTCT
CTAGCATAATTTCAGACTGAAGGTGTGGAACAAGGCCCAAATTATGAGCAATCCACCCTTAGTTCTAATGGCAGTAGTAT
GTTCTGAGCCCTGATCATGCTTATATTTGAATTTTCTGTGCCAGCAGGGACACACTTGATTAATGATGATTATGGTTTGA
GCAATCATAGCAATGTGTT------TCATTTTTAGTATGCTCTGTCTTTGATTGCCTTTTCTATCTCTTAAGCAAGGGAT
AATGATTCATATCTGACTGACCGTCGAAATCTCAAGCATCTATGAACTCAAATAACCTACTGGTCGAATTCTGAGACTCA
AGAGTTAGGCCCTTCTGTTTCA----TTCAAAACCTCTGTGAACTCTGATCAGTGATTTTAGTCCAGTCGGGTAATGTAA
TGCATATGAAGACACCTATCTAATTGCTGAATATGCAGTGCG-CAATCGAAACATTGTGCCTCCCAGTCTTTTCATAAAT
TTATGAAAAGGGACATTGTGTCT--CAGTCACTGCGCCTAAGGAGTTTTACTAGTTGGTCTTTTTGTACATTTCGAGTCA
GTATTTGCTACTCTGACAATTATCTTATAGCAAGGAGTCTTCGTATCTTGCTATTGCTAGTGAAGGCCAAGTATCATTCT
CCTTTCTGCTTTCAGTAAATCTCGAGTTCATCATCATTTAAACAATGTGATATAGAATAGCAACATTTTGTAGCG
>chr4B_504
CACTGATACTA---------------------------------------------------------------------
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----------------------------------TCATTGGAAGGAATTGAACCGATTCAAAAATACCGTA---TCTTCA
AGGCTATAAATGCTCCCCGATCATATCTCATCATCCCACGATCTTATCCCGATCCACCCAGATTTCCTACCATTCCCGGC
CCGATTCGAACGTTGCGAAATTCAAACCTCCAACGAAAACAGAGAGGAAGCAGCACACGGGCCAACAACAAACCCACCAT
T-AAAAAGGCCACCAACCGACGCCAGAAG------CAGAAGAGAACAATCTCCTCGCTCCCTTTCCGTGGCACGCGGCCG
CGAGAGG--------CCTCTCCCCTTTCTTGAAGCCACGGCAACCCCCCGAACAAACCCCCAATTACAACGACGCACCAC
CGCACCGCACCCCATCT------CCATCGCCACCGCTTTTAAATCCCCACCGCCGCGAACGGATCGAACGGCCGGCCTAC
CCACCCTCTA--CCTGCCAGCCAGCCTAGGGTTTTGAGT-CCGC-----CCCCCTCCGCCGCGCACCATGGGCCCCGACG
AGCTCCCCAAGGCCGCCGCCGCCG------AGGAGGCCGCCCCGTTCTCCTTCAGCATCTGGCCGCCGACGCAGCGGACG
CGGGACGCCGTGGTGCGGCGCCTGGTGGACACCCTGGCCGGCGACACCCTCCTCTGCAAGCGCTACGGCGCCGTGCCGGC
CGCCGACGCCGAGCCCGCCGCGCGCGCCATCGAGGCCGAGGCCTTCGACGCCGCCGCCGTCACCGGCGGGGCCGCCGCCT
CCGTCGAGGAGGGCATCGAGGCGCTGCAGCTCTACTCCAAGGAGGTCAGCCGCCGCCTCCTCGACTTCGTCAAGTCCCGC
TCCGCCGCCGCCAAGGCCGAGCCTCCCTCGGAGGAGGCGCCCGCCGTCAAGGAGGAGACCTCCGAGGCCTGAGCCCCGGA
CGAGGACA-TTCGTTTCGTTTATGCTTCGAGATAAAATTCGTTTACATCTAGAGTTCGTGTGC-------GGCGTTGGCC
TCTGCTTGGGATGAGTTGCCTGTAGGTTGTTGGCGTGCCTGTGCTGTTATTGTTCTTTCAGTAGCTGCTGGTTACCCT--
TTTTTTTAGTGTGTTCGTTAATTACTCCCGTTTGTATCTGTGAACAAGAATTATCTTCACCTTGTCGTGGCAATGAT-CA
AGATTTCACCGGAATATCTGTCACCAAGCCTTTCAGATCGATGCATATTTTGT---------------------AATTCT
CTAGCATAATCTCAGACTGAAGGTGTGGAACAAGGCCCAAATTATGTGCAATCCACCCTTCCTTCTAATGGCAGTAGTAT
GTTCTGAACCCTGATCATGCTTATATTTGAATTTTCTGTGCCAGTAGTGACACATTTGATTAATGATGATTATGGTTTGA
GCAATCATAGCATTGTGTC------TCACTTTTAGTATGCTCTGTCTTTAGTA-CCTTTTCTATCTC-TAAGCAAGGGAT
AATGATTCATATCTGACTGACCATCGAAATCTCAAGCATCTATGAACTCAAGTAACCCACTGGTCGAATTCTGAGACTCG
AGAGTCGGGCCCTTCTGT--------TTCAAAACCTCTGTGAACTCTGATCAGTGATTTTAGTCCAGTCGGGTAATGTAA
TGCATATGAAGACATCTATCTAATTGCTGAATATGCAGTACA-CAATCAAAACATTGTGCCTCCCAGTCTTTTCATATAT
TTATGAAAAGGAACATTGTGTCTCTCAGTCACTGCACTGAAGGAGTTTTACTAGTTGGTCTTTTTTACA-----------
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>chr4A_714
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--AAAAAGGCCACCCACCGACGCCGCATCCTCCTCCACAAGAGAACAGCCTCCTTCCCCCCTTTCCGTGGCACGCGGCCG
CGAGAGGACTGGCCTCCTCTCCCCTTTCTTGAAGCCACGGCAACCCCCCGAACAAACCCCCAATTACAACGACGCACCAC
CGCACCGCGCCCCATCCCCGTCCCCATCGCCACCGCTTTTAAATCCCCACCGC---GAACGGACCGAACGGCCGGCCTAC
CCACCCCCTG--CCGCTC--CCTGCCTAGGGTTTTGAGTCCCGC-----CCCCCTCCGCCGCGCACCATGGGCCCCGACG
AGCTCCCCAAGGCCGCCGCCGCCGGTGCCGAGGAGGCCGCCCCGTTCTCCTTCAGCATCTGGCCGCCGACGCAGCGGACG
CGGGACGCCGTGGTGCGGCGCCTGGTGGACACGCTGGCCGGCGACACCCTCCTCTGCAAGCGCTACGGCGCCGTGCCGGC
CGCCGACGCCGAGCCCGCCGCGCGGGCCATCGAGGCCGAGGCCTTCGACGCCGCCGCCGTCACCGGCGGGGCCGCCGCCT
CCGTCGAGGAGGGCATCGAGGCGCTGCAGCTCTACTCCAAGGAGGTCAGCCGCCGCCTCCTCGACTTCGTCAAGTCCCGC
TCCGCCGCCGCCAAGGCCGAGCCGCCGGCCGAGGAGGCGCTCGCCGTCAAGGAGGAGACCTCCCAGGCCTGAGCCCCGGA
CGAGAACCGTTCGTTTCGATTATGCTTCGAGATAAAATTCATTTGCATCTAGAGTTCGTGTGC-------GGCGTTGGCC
TCTGCTTGGGATGAGTTGCCTGTAGGTTGTTCGCGTGCCTGTGCTGTTATTGTTCTTTCAGTAGCTGCTGGTTACCTT--
TTTTTTTAGTGTGTTCGTTTATTACTTCCGTTTGTATCTGTGAACAAGAATTATCTTCACCTTGTCGTGGCAATGATCCA
AGATTTGACCGGAATATCTGTCACCAAGCTTCTCAGATCAATACATATTTTAT---------------------AATTCT
GTAGCATAATTTCAGACTGAAGGTGTGGAACAAGGCCCAAATTATGGGCAATCCACCCTTCGTTCTAATGGCAGTAGTGT
GTTCTGAACCCCGATCATGCTTTTATTTGAATTTTCTGTGCTAGTAGGGACACATTTGATTAATGATGATTATGGTTTGA
GCAATCATAGCATTGTGTC------TCACTTTTAGTATGCTCTGTCTTTC---GCCTTTTCTATCTCTTAAGCAAGGGAT
AATGATTCATATCTGACTGACCATCGAAATCTCAAGCAT-------CTCAAGTAACCTACTGGTCGAATTCTGAGAGTCG
AGAGTCAAGCCCTTCTGTTTCAAAACCTC----------TGAACTCTGATCAGTGATTTTAGTCCAGTCGGGTAATGTAA
TGCATATGAAGACATCTATCTAATTGCTGAATATGCAGTACGCCAATCAGAACATTGTGCCTCTCAGTCCTTCCATAAAT
TTATGGAAAGGAACATTGTGTCT--CAGTCACTGCATTGAAGGAGTTTTACTAGTTGGTATTTTTGTACATTTTGAGTCA
GTATTTGCTACTCTGGCGATTATCTTGTAGCAAGGAGTCTTCATATCTTGCCGTTGCTAGTGAAGGCCAAGTATTATTCT
CCTTTCTGCTTTCAGTAAATCTCGAGTTCATCATCTTTTAAATGATGTGATATAGAATAGCAATATTTTGTAGCG
>chr2A_1420
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------CA-TTTGTTTCGTTTATGTTTCGAGATAAAATTCATTTACATCTAGAGTTCGTGCCGAAGGTGTGGCGTTGGCC
TCTGTTTGGGATGTGTTGCCTGTAGGTTGTTCACATGTCTGTGCTGTTATTGTTCTTTGAGCTACTGCTGGTT-CTCT--
TTTATTTCATGTTTG---TAATTACTTCCGTTTGTATCTGTGAGAAAGAATTATCTTTGCTTTGTCATGGCAATGGTCAA
GA--TTGACCGGTATATCTGTCACTAAACTTCTCAGATCAATTCATATTTTATTAAAAAAATGACATATTTAACAATTTT
GTAGCGTAATTTCAGACTGAAGGTGAGGAACAATTCCCAAACTATGAGCAATCCACCCTTCGTTCTAATGGCAGTAATGT
GTTATGAACACTGATCATGCTTATATTTGAATTG-CTGTGCATGTAGGGACACATTTGATTACTGAAGAATATGGTTTCA
GCAATCATAGCATTGTGTTTCCTTTTCATTTTTAGTATGATCTGTCTTTGATTGCCTTTTCTTTCTCTTAAGCAAGG-AT
AATGATTCATATCTGACTGCGCATTGAAAGTTCTAGCATGTATGTAATGTAAT---CTACTGGTAGAGATATCGAGACTA
AGAGTCAAGCCATTCTATTTAAAACTTTCAAAATCGCTATGAACTCTGATCAGTGATTATAGTCCAGCCAGGTAATGCAA
TGCAAC-----------ATCTAATTACTGAATATGCAGTACGC-AATCAAAGTATTGTGCCTCGCAGCCTTTGCATATAA
T-------------------------------------------------------------------------------
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>SNPs
SS-SSSS-SS-SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS-------------------------------------SSS------
-------------------------------------------------------------------------------S
---------------------------------------------------S-S--------------------------
-S------------------------------------------------------------------------------
--------------------S--------------------------------------S--------------------
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-------SSSSS---S--S-S----------------------SSSSSS--S----------------------------
-------------------------------S---SSSS-----------------------------------------
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--------S-----------------------------SS--------------------------------------SS
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-----------------------------------------------------------------------------SSS
----------------------------S---------------------------------------------------
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------------------------------------------------------------S-------------------
-------S------------------------------------S---------S-------------------------
------------S-------------------------------------------------------------------
----------------------S---------------------------------------------------------
-----S--------------------------------------------------------------------------
--------------S------------------------S--------S-------------------------------
-----------S-----------------------S-SS----------------------------------S------
---------------S-S--------S---------------S--------SS---------------------S-----
-----------------------------------S------SS-------------------S-----------
>forward_413
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-------------------------------------------------------------------------ACGTCAA
AAATGTGCCACCG-------------------------------------------------------------------
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>reverse_2200
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---------------------------------------GCGCAATCGAAACATTGTGC---------------------
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