>input_sequence_86429
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----------------------------------------------ATGCTGCCAGCATCAGCGATCAGCTTTCCTGTGC
TCACCAAGACGAAGAAGGTTTTGAAGACATCACCTGCTGAGATCTCCCCGGACTGTGCCAATTTCCCACCATACCAGAAG
TCCAATGCCCATGATAAGAATGTGAGGCACGGCGACAGCCCTGTGGTTATCCCTGCTACCCATGACTTCTTCCTTGCTTT
CCTCAATGGTTCCTCTTGTGTATGCTCGAAGAGCTGA-------------------------------------------
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>chr3A_1_TraesCS3A01G285400
CGGGTAAGTACCACGCTCAATCACCTTGCCCTCTCCTAAGAAGGCTATTGAGTCTGCATTCTTGATTGTGTTTAGTCGAT
GTGCCACTACGATTGTGGTCCTCCCTGTCATGATCCGATCAAGTGCTTCCTGCACCACTTGCTCGGACTGTGCATCGAGA
GCACTTGTTGCTTCATCAAGAAGTAGTATAGCTGGATCTCGGATTATTGCCCTCGCAATTGCAATTCTTTGCTTCTGCCC
CCCTGATAGTTGTATGCCATGCTCTCCACAATCAGTATCGTATCCATCCTTCAGAGATCTGAAAAGGCGTAAGCTTTAAA
TTTCATACGCTGGATAGTGGGAGCACATAGCTTAATATATATGCAAGCGGGTAATATATCTAAGACTTACGAGATGAATT
CATGCGCATTTGCGGCTTTAGCAGCTTCGACAATCTCTTCTTCATCAGCTTCTGGTTTACCAAAGGCAATGTTGTCCCTG
ACACTGCCAGAAAACATTGCGGGCTCCTGACTAACTAGAGCAGTGAATCCTCGATACCAAAGAACATTCATCTCCCTCAC
GTCCATACCATCGATCCTTACAGCACCTCTATCAACATCATAGAACCTCTGGATCAAACCTATGATTGTGGATTTACCAC
ATCCACTTCTCCCCACCAGGCCAATGCTTGTTCCTGCTTTGACGTCCAAGCTAAAATCTTGCAGGATCAGGCATTGTGGC
CTTGTTGGATATGCAAAATCCACCTTTTTGAACTCTATTCGTCCTTGTATTTTGCTCTTCGGATTGTCCTTTTCCACCTG
CAGTGTAGTCATGTTAGTATTTCATCCTACAGCAATCTAGCATCCTAAAAATC-----TTTCTGCGAGGCTGCTGA-TTT
TATTCCATACAATGCTCATGAGAGTATGAATGTGTTACCTGTGAATTTTGCGGAGAGATAGATTTCCTATCTAGCACCTC
GAAAACTGAAGCAACGGCATTTGATCCCTTTGCCAGGTCAGATGTCATGCTGCCAGCATCAGCGATCAGCTTTCCTGTGC
TCACCAAGACGAAGAAGGTTTTGAAGACATCACCTGCTGAGATCTCCCCGGACTGTGCCAATTTCCCACCATACCAGAAG
TCCAATGCCCATGATAAGAATGTGAGGCACGGCGACAGCCCTGTGGTTATCCCTGCTACCCATGACTTCTTCCTTGCTTT
CCTCAATGGTTCCTCTTGTGTATGCTCGAAGAGCTGAAGAATCTTCGATGAACATCCAAATGAGGTCACCATCCTGTGGT
TGTAAACAGCTTCGATGGCAATCTGAGTACTTTCATACTGAGCCTTTGCCAAGTCCCTTGACACATTTGAAAGAACTATC
TTCTTGGCATAGTAGCATATCATCGTGCAGGGCTGTACAGCAATCATGACAAGGGCAAGTTTCCATGCTACTATGAGTCC
CATTGTCACCGCAATTACAATTCCACAAGCTGTTTGAAGTAGCAGGGAGATCCTGTCTGCGACAAGGGTTTTGACAAGAG
AAGACTCGTCACTTAGCCGAGAGCACAATGAGCCACTTGAATTTGTGTCTTCATCAAACCATGCTGCCTCAAAGGTTAAG
ATCTTCTCAAGCACTTGGACTCGGATACGCCTAACTAGGTGCTCCCCCATGTAGGCGAAATTGTAGTGTTGCAGTAGATT
AACAGCAATGGATACCAGGGACAGGGAGCAAAAGATCAATGCATAGCGGCTGATGATTGCATTCATCTCATTGTGGTCCT
GAACAAAGAATGCAGCAATCATTCCTCCGATGGTTAGAGCATAGATGGGCTGCAAGGAACCATATACCAATGCAGAGATG
CTTCCTATGAGTGCTTGCTTCCACTCTGGTGCATTCATTGCAAGAAGCCTTGAGAAAGACGGTGCAGGTGGGGAAACATA
TGACCCGGTTTCTTTTGAAACACCTGGTGTGAGTGGCATGGGACTTGCTCTGGACATGCTGAGACGGCTGGCACTGGTCC
TTGCTGCTGAGGAGGCCCTAAATTGGTCAGTTTCTTGATCTATGTAGCTCACCATCTTCTGCAATTTCACAAGTCGTGAA
TATGGGCCACCCTTGTTGATCAGCTCATCATGTGTCCCAATTTCTGCTATGCTACCCCCATCGACTACCGCGATTTGATC
GGCATTCTTCACGGTCGAAAGCTTGTGAGCTACGACCTGGTCAGCATTAAGGTATAAATAATGAGTGCTACAGTGCC
>chr3B_2
-GGGTAAGTACCACGCTCAATCACCTTGCCCTCTCCTAAGAAGGCTATTGAGTCTGCATTCTTGATTGTGTTTAGTCGAT
GTGCCACTACGATTGTGGTCCTCCCTGTCATGATCCGATCAAGTGCTTCCTGCACCACTTGCTCGGACTGTGCATCGAGA
GCACTTGTTGCTTCATCAAGAAGTAGTATAGCTGGATTTCGGATTATTGCCCTCGCAATTGCAATTCTTTGCTTCTGTCC
TCCTGATAGTTGTATTCCGTGCTCCCCACAATCAGTGTCATATCCGTCCTTCAGAGATCTGAAAAGGCGTAAGCTGTAAG
TTTCATATGTTGGATACTGTGAGTACATAGCTTAATATATATGCAAGCGGGTAATATATCTAAGACTTACGAGATGAATT
CATGCGCATTTGCGGCTTTAGCAGCTTCGACAATCTCTTCTTCATCAGCTTCTGGTTTACCAAAGGCAATGTTGTCCCTG
ACACTGCCAGAAAACATTGCAGGCTCCTGACTAACTAGAGCGGTGAATCCTCGATACCAAAGAACATTCATCTCCCTCAC
ATCCATACCATCGATCCTTACAGCACCTCTATCAACATCATAGAACCTCTGGATCAAACCTATGATCGTGGATTTACCAC
ATCCACTTCTCCCCACCAGGCCAATACTTGTTCCTGCTTTGACGTCCAAGCTAAAATCTTGCAGGATCAGGCATTGTGGT
CTTGTTGGATATGCAAAATCCACCTTCTTGAACTCTATCCGTCCTTGTATTTTGCTCTTCGGATTGTCCTTTTCCATCTG
CAGTGTAGCCATGTTAGTATTTTATCTTACAGCAATCTAGCATCCTAAAAATCATTATTTTCTGCGAGGCTGCTGATTTT
TATTCCATACAATGCTCATGAGAGTATGGATGTGTTACCTGTGAATTTTGCGGAGAGATAGATTTCCTATCTAGCACCTC
GAAAACTGAAGCAACGGCATTTGATCCCTTTGCCAGGTCAGATGTCATGCTGCCAGCATCAGCAATCAGCTTTCCTGTGC
TCACCAAGACGAAGAAGGTTTTGAAGACATCACCTGCTGAGATCTCCCCGGACTGTGCCAATTTCCCACCATACCAGAAG
TCCAATGCCCATGATAAGAATGTGAGGCACGGCGACAGCCCTGTGGTTATCCCTGCTACCCATGACTTCTTCCTTGCTTT
CCTCAATGGTTCCTCTTGTGTATGCTCGAAGAGCTGAAGAATCTTCGATGAACATCCAAATGAGGTCACCATCCTGTGGT
TGTAAACAGCTTCTATGGCAATCTGAGTACTTTCATACTGAGCCTTTGCCAAGTCCCTTGACACATTTGAAAGAACTATC
TTCTTGGCATAGTAGCATATCATCGTGCAGGGCTGTACAGCAATCATGACAAGGGCAAGTTTCCATGCTACTATGAGTCC
CATTGTCACCGCAATCACAATTCCACAGGCTGTTTGAAGAAGCAGGGAGATCCTGTCTGCGACAAGGGTTTTGACAAGAG
AAGACTCGTCACTTAGCCGAGAGCACAACGAGCCACTTGAATTTGTGTCCTCATCAAACCATGCTGCCTCAAAGGTTAAG
ATCTTCTCCAGCACTTGGACTCGGATACGCCTAACAAGATGCTCCCCCATGTAGGCAAAATTGTAGTGTTGCAATAGATT
AACAGCAATGGATACCAGGGACAGTGAGCAAAAGATCAATGCATAGCGGCTGATGATTGCATTCATCTCATTGTGGTCCT
GAACAAAGAATGCAGCAATCATTCCTCCGATGGTTAGAGCATAGATGGGCTGCAAGGAACCATACACCAATGCAGAGATA
CTGCCTATGAGTGCTTGCTTCCACTCTGGTGCATTCATTGCAAGAAGCCTGGAGAAAGACGGTGCAGGTGGGGAAACATA
TGACTCGGTTTCCTTTGAAACACCTGGTGTGAGTGGCATGGGACTTGCTCTGGACATGCTGAGACGGCTGGCACTGGTCC
TTGCTGCTGAGGAGGCCCTAAATTGGTCAGTTTCTTGATCTATGTAGCTCACCATCTTCTGCAATTTCACAAGTCGTGAG
TATGGGCCACCCTTGTTGATCAGCTCATCATGTGTCCCAATTTCAGCTATGCTACCCCCATCGACTACCGCGATTTGATC
GGCATTCTTCACGGTTGAAAGCTTGTGAGCTACGACCTGGTCAGTATTAAGGTATAAATAATGAGTGCTACAGTGCC
>chr3D_2
-GGGTAAGTACCACGCTCAATCACCTTGCCCTCTCCTAAGAAGGCTATTGAGTCTGCATTCTTGATTGTGTTTAGTCGAT
GTGCCACTACGATTGTGGTCCTCCCTGTCATGATCCGATCAAGTGCTTCCTGCACCACTTGCTCGGACTGTGCATCGAGA
GCACTTGTTGCTTCATCAAGAAGTAGTATAGCTGGATTTCGGATTATTGCCCTCGCAATTGCAATTCTTTGCTTCTGTCC
TCCTGATAGTTGTATTCCGTGCTCCCCACAATCAGTGTCATATCCGTCCTTCAGAGATCTGAAAAGGCGTAAGCTGTAAG
TTTCATATGTTGGATACTGCGAGTACATAGCTTAATATATATGCAAGCGGGTAATATAGCTAAGACTTACGAGATGAATT
CATGTGCATTTGCGGCTTTAGCAGCTTCGACAATCTCTTCTTCATCAGCTTCTGGTTTACCAAAGGCAATGTTGTCCCTG
ACACTGCCAGAAAACATTGCAGGCTCCTGACTAACTAGAGCGGTGAATCCTCGATACCAAAGAACATTCATCTCCCTCAC
ATCCATACCATCTATCCTTACAGAACCTCTATCAACATCATAGAACCTCTGGATCAAACCTATGATTGTGGATTTACCAC
ATCCACTTCTCCCCACCAGGCCAATACTTGTTCCTGCTTTGACGTCCAAGCTAAAATCTTGCAGGATCAGGCATTGTGGT
CTTGTTGGATATGCAAAATCCACCTTCTTGAACTCTATCCGTCCTTGTATTTTGCTCTTCGGATTGTCCTTTTCCACCTG
CAGTGTAGCCATGTTAGTATTTTATCTTACAGCAATCTAGCATCCTAAAAATCATTATTTTCTGCGAGGCTGCTGATTTT
TATTCCATACAATGCTCATGAGAGTATGAATGTGTTACCTGTGAATTTTGCGGAGAGATAGATTTCCTATCTAGCACCTC
GAAAACTGAAGCAACGGCATTTGATCCCTTTGCCAGGTCAGATGTCATGCTGCCAGCATCAGCAATCAGCTTTCCTGTGC
TCACCAAGACGAAGAAGGTTTTGAAGACATCACCTGCTGAGATCTCCCCGGACTGTGCCAATTTCCCACCATACCAGAAG
TCCAATGCCCATGATAAGAATGTGAGGCACGGTGACAGCCCTGTGGTTATCCCTGCTACCCATGACTTCTTCCTTGCTTT
CCTCAATGGTTCCTCTTGTGTATGCTCGAAGAGCTGAAGAATCTTTGATGAACATCCAAATGAGGTCACCATCCTGTGGT
TGTAAACAGCTTCTATGGCAATCTGAGTACTTTCATACTGAGCCTTTGCCAAGTCCCTTGACACATTTGAAAGAACTATC
TTCTTGGCATAGTAGCATATCATCGTGCAGGGCTGTACAGCAATCATGACAAGGGCAAGTTTCCATGCTACTATGAGTCC
CATTGTCACCGCAATTACAATTCCACAGGCTGTTTGAAGAAGCAGAGAGATCCTGTCTGCGACAAGGGTTTTGACAAGAG
AAGACTCGTCACTTAGCCGAGAGCACAACGAGCCACTTGAATTTGTGTCCTCATCAAACCATGCTGCCTCAAAGGTTAAG
ATCTTCTCTAGCACTTGGACTCGGATACGCCTAACAAGATGCTCCCCCATGTAGGCAAAATTGTAGTGTTGCAATAGATT
AACAGCAATGGATACCAGGGATAGTGAGCAAAAGATCAATGCATAGCGGCTGATGATTGCATTCATCTCATTGTGGTCCT
GAACAAAGAATGCAGCAATCATTCCTCCGATGGTTAGAGCATAGATGGGCTGCAAGGAACCATACACCAATGCAGAGATG
CTGCCTATGAGTGCTTGCTTCCACTCTGGTGCATTCATTGCAAGAAGCCTGGAGAAAGACGGTGCAGGTGGGGAAACATA
TGACTCGGTTTCCTTTGAAACACCTGGCGTGAGTGGCATGGGACTTGCTCTGGACATGCTGAGACGGCTGGCACTGGTCC
TTGCTGCTGAGGAGGCTCTAAATTGGTCAGTTTCTTGATCTATGTAGCTCACCATCTTCTGCAATTTCACAAGTCGTGAG
TATGGGCCACCCTTGTTGATCAGCTCATCATGTGTCTCAATTTCAGCTATGCTGCCCCCATCGACTACCGCGATTTGATC
GGCATTCTTCACAGTGGAAAGCTTGTGAGCTACGACCTGGTCAGTATGAAGGTATAAATAATGAGTGCTACAGTGCC
>SNPs
S-------------------------------------------------------------------------------
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-------------------------------------S---------------------------------------S--
S--------------S--S-----S-----------S--S-----S-----------------------------S---S
-------S-S------S--S---S--------------------------------------------------------
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--------------------S--------------------S--------------------------------------
S-------------------------------------------------------------------------------
-------------------------S-----------------------------------------------------S
--------------------------S-----------S-----------------------------------------
--------S-------------S---S-----------------------------------------------------
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---------------------------------------------------------------S----------------
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-------------S------------------------------------------------------------------
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---------------------------S-----------S----------------------------------------
----------------------------S--------------------S------------------------------
--------S--------------------------S--S-----------------S----------------S------
------------------------S-------------------------------------------------------
----------------------------------------------------------------S---------------
--S-----------------------------------------------S-----------------------------
----S-------S-------------------------------------------------------------------
-------------------------------------------------------------------------------S
--------------------------------------------S-----------------------------------
---------------S----------------------------S--------------------------------
>forward_344
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----ATACGCTGGATAGTGGGAGC--------------------------------------------------------
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>reverse_1891
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--------------------------------------------------TGAGAAAGACGGTGCAGGTG----------
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