>input_sequence_82694
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----------------------------------------------------------------------------ATGA
GGTCTCTGCAGGCTGTGCTCGTGGCGGTCCTCGTCCTGCTCGCCGTCGCCGCGACGACGGACGCTGCCTGGGCGCCGATA
CCGGACCGCGACCTGAACGGCATGGTGGTGCAGCAGGCGGGCCGGTTCGCCGTGCTCGTGCATGACATCACGCGCCGGAC
GACCCTGGTGTTCGTCAAGGTGGAGCGCGGCGAGATGGAGCGGCCGGCGGGCGGCGGCCTCGGTACCAACTACCGGCTCG
TGGTGACCGCGGCGAGGGCGCCCGGCGGGAGCAGGGGCCGGTACGAGTGCGTCGTGTGGGGCGTGCCCGGCTCGCGCACC
AGCACCTGGAAGCTCCTCGGCTTCAAGGCGCTCTAG--------------------------------------------
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>chr4D_1_TraesCS4D01G287800
AGGCGACAAGGGTGGCCAAGCTCAAGCGCGAGCAAGACCGCGTCGTCCGACGCTTGCAAGGCTACATCGTCATCTCCGAT
TCATGCTCC---------GACGACGGGTCCGACATGGACCCAGCTCCTGCCGCGGACTCCTATAGCTGCGCCAGCGACCG
GAAGGGAAAAGGGCCGGCGAGGAAGTGGTGAAGCTCGCCCTCTCCTGTT-TATAATCTAGTTCTAGTATGTAGTTACAAT
GTGCCGGATTGTTGAACCGTGTGACTTATACCC--GTTTGGTGATCTTTT-GATGATGTTCATGTGAATTACGCCCGTTT
GGTACCAGTTTATATGTTTT----CTATTGATTTT---GATCGTTTGTTGATCTACGTAGTAGTTGCATGAATTTGTATG
GATATAGGGTTCGGAATATGAGATACGTGAGTGCGAAGGCATGGATTTAGGGAGTGTCCAATCAAAGTTCACGGGTGTGT
CCAGGCGCGTCCGCGGATATATAGG---CCGGATTTGCCAAGCCCGCGTGTAGATGCTCTTACTTTGATTTACGAAGAAA
AAAATGGGAGCGGACGGCCGGTAGGGCTCTCCGCCCTACAGAGCCAAGAAATCACGCTGAAGATCATGGACGCATGCAA-
-TCCTTTCCCTGGAAAAGATGGCGTGCGCGCGTACGTACCTTCGATCGCAATGCGTCAAGTTTCAACGCCCAGATATCGC
CTCCGGAAATTAGA-TCTCGCCGTCCCCTGGCCGGCCTCGATTCCGGGGGCGCAT-----GCACCAAGCTGGCCTCGCTG
TCGCACGATCCGGAGAAA-GTGATCACGCATCCACC-CCTGTTGACCATGGCATGCACT--TGCAGCGCTGT-CCGGCTG
CGTGTCGCTCGCCTCGGCGCTAGCTTGGGACTCGCGCAACGATCGACGCCTTTGCCCGCGCTATAAAGATCGCCGACATC
TCGGCATGCAAAGGCACCCACATACGACAAGAAAACTGCACCAGTGCACACCAGTGCGAGTGTGTGACACGCCACCATGA
GGTCTCTGCAGGCTGTGCTCGTGGCGGTCCTCGTCCTGCTCGCCGTCGCCGCGACGACGGACGCTGCCTGGGCGCCGATA
CCGGACCGCGACCTGAACGGCATGGTGGTGCAGCAGGCGGGCCGGTTCGCCGTGCTCGTGCATGACATCACGCGCCGGAC
GACCCTGGTGTTCGTCAAGGTGGAGCGCGGCGAGATGGAGCGGCCGGCGGGCGGCGGCCTCGGTACCAACTACCGGCTCG
TGGTGACCGCGGCGAGGGCGCCCGGCGGGAGCAGGGGCCGGTACGAGTGCGTCGTGTGGGGCGTGCCCGGCTCGCGCACC
AGCACCTGGAAGCTCCTCGGCTTCAAGGCGCTCTAGCCACATGCATGGCCACCGAGCACTCGTACGTGTGAGTGTGACGG
TCCGCGGCAAAGCCGCGCGCGTACTCCGCTGAATAATCTACGTTACCCAGGCATATAGTATGTGCATGGGTTTTTTAAGT
ACTAGTACACGTCGTCTAATTTGTTACGCGAGTAAGGCACGGCAAATACCTGTCTGCGTGCAGTTCGCACACACTAGCGC
CGGAAT----AAGTTGTGACTATCACCCAGTATACTTCTTTTTTGTCATCACTGCCCGAATGATGTATGTTGGTGATTTT
ATAAGAGTCTGGATACTGTGATTGTTCTCAAAGGTGTTTTCCCTATACTCCACTATAATTCCAGCGTCAAATTTTTTACC
ATGGTAAATCGAACG-TTTTTTATGATAATATGTGTTTGCCGATGATGGCAAATTTAGTTGATAAGCATGTCAAATCCGT
CTTAGTTTATTTATTTTTTTGTCAGGGAATTTTCGTGCTCGTGAACTAAATTTGC-------------------------
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--------------CATAAAAAAGTTTAATTTTCCATGCTTCAAAAATTTGACGTCAGATTTTTTGCATTACCATTTTTC
TATACCAATTACGAAATAAGAAAGATTATAGTAACAAGAACAATGCATTAGTAGGAGATTGTGCTGTCTACCTTCAATCT
CCACAT--------GAAGAAAACATAGGTGATTCTCACGCATTAGCAAAGCTCAAAACTTGCTAGTCCTACTTCCCGCGG
TTGGCCGATCTTTGGGGGACTG-GTAAGCCTAACACATCCGGCTAAAATCGTTCTCATCCTAAAAATGCCCGATGCCACA
AAAGTCGAAGACTAACACCAACCAACATGTGGTTGGATGGTTAGAGAGACAGTGGTATCCTCAGCCCATCAGGATACAAC
TCCTGGTGCTCGCATTATTTCTGGATTTATTTCAGGATTTCCGGCGATGCACTTTCAGTAGAGGAGACGTTCCCGTCGAG
GACAAGGCGCCTATGATGACTTCGTAAATCTCAAGATGATATATCGGCC
>chr3D_1
AGGCGGCGAGGGTGGCCAAGCTCAAGCGCAAGCAAGGCCGCGTCGTCCCGCGCTTGCAAGGTTACATAGTCATCTCTGAT
TCCTCCTCCTCCGACGGGTCTGACGGCTCCGACATGGACCCACCTCCTGCCGCGGACCCCTACAGTTGCGCCGGCGACC-
GAAGGGCAAAGGGCCGGCGAGGAAGTGGTGAAGCTCGCCCTCTCTTGTT-TATAATCTAGTTGTAGTATGTAGTTACAAT
GTGCCGGATCGTTGAATTGTGTGACTAG--CCC--GTTTGGTGATCTTTTGGGTGATGTTTATGTGAATCATGCCCGTTT
GGTACCAGTTTATATGTCCCTTTCCGCTCGATTTT---GACCATTTTGTGATCTACGTACTAGTTGCATGAATTTGTATG
GATATAGGCTTCGGAATATGAGATACACGGGTGTGGAGGCCCGAATTTAGGGAGTGCCCGGTCAATGTCCGCGGGCGTGC
CCGGGCGGGTCCGCGGACATATAGGGGG-CGGATTTGCCAACTTCGGTTGTAGATGCTCTTA------------------
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>chr2D_1
AGGCGGCGAGGGTGGCTAAGCTCAAGCGCAAGCAAGACTGCGCCGTCCGGCGCTTGCAAGGCTACATCGTCATCTCTTAT
TCCTCCTCCTCCGACGGGTCTGGCGGCTCCGACGTGGACCCACCTCCTGCCGCGGACTCCTACAGCTGCGTCGGCGGCCG
GAAGGGCAAAGGGCCGACGAGGAAGCGATGAAGCTCGCCCTTTCCTGTT-TATAATCTAGTTCTAGTATGTAGTTACAAT
GTGCCGGATCGTTGAACTATGTGACTTG--CCC--ATTTCGTGATCTTTT-TATGATGTTTATGTGAATTATGCCCGTTT
GGTACCAGTTTATATGACCTTTTCCTGTCTTACTTCAAGATCGTATCATGATCTACGTACTAGTTGCATGAATTTGTATG
GATATAGGGTTTGGAATATGAGATACGTGGTTGTGAAGGCCCGGATTTAGGGAGTGCCGGGTCAGTGTCCATGGGCGTGC
CCGGGTGCGTCCACGGACGTATAGGGGCCCGGATTTGCCAACTTCGGTTGTAGATGCTCTTA------------------
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>chr6D_1
AGGCGGCGAGGGTGGCCAAGCTCAAGCGCAAGCAAGACATCATCGTCCGGCGCTTGCAAAGCTACATCGTCATCTCCGAT
TCCTCCGATGACGATGGGTCCGACGGCTCCGACATGGACCCACCTCCTGTCGCGGACTCCTACAGGTGCACCGGCGACCG
GAAGGGCAAAAGGCTGGTAAGGAAGTGCTGAAGCTCGCCCTCTCCTGTT-TATAATCTAGTTATAGTATGTCTTTACAAT
GTGCCGGATTGTTCAACTATGTGACTTG--CCA--GTTTGGTGATCTTTTGGGTGATGTTTATGTGAATTATGCCCATTT
GGTATCAGTTTATATGTCTGTTTCCTGTCGATTTT---GATCGTTTCGTGATCTACATACTAGTTGCATGAATTTATATG
GATGTAGGGTTCGAAATATGAGATATGCGGGTGTGAAGGCTCGAATTTAGAGAGTACCCGGTCAATATCCACGGACGTGC
ACGGACGCGTCCGCGGACGTATAAGGGTCCGAATTTGCCAACTCCGCCTGTAGATGCTCTTACATTGAT-----------
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-------------------------------------------------
>chr3A_9
--------AGGGTGGCCAAGCTCAAGCGCAAGCAAGACCGCGTTGTCCGGCGCTTGCAAGGCTACATCGTCATCTCCTAT
TCCTCCTCC---------TCCGACGGGTCCGACGTGGATCCACCTCCTGCCACGGACTCCTACAGATGCGCCGGCGACCG
AACGAGCAAAGGGCCGGCGAGGAAATGGTGAAGCTCGCCCTCTCCTGTT-TATAATCTAGTTGTAGTATGTAGTTACAAT
GTGCCAGATCATTGAACTGTATGATTTC--GCC--GTTTGGTGATCTTTT-GGTGATGTTTATGTGAATTATGCCCGTTC
GGTACCAGTTTATATGTCCATTTCCTGTTGATTTT---GATTGTTTTGTGATCTATGTACTAGTTGCGTGAATTTGTATG
GATGTAGGGTTCGGAATATGAGATACACTGGTGTGAAGGCTCGGAATTAGGGAGTGCCTGGTTAGTGTCCGCGGGTGTGC
CTAGACGTATCCGTGGACGTATAGGGTGTTAGATTTGCCAACTCCGACTGTAGATGCTCT--------------------
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>chr6B_9
--------AGGGTGGCCAAGCTCAAGCGCAAGCAAGACATCGTGGTCTGACGCTTGCAAAGCTACATCGTCATCTCCGGT
TCCTCCGATGATGATGGGCCCGATGGCTCTGACGTGGACCCACCTCCTGCCGCGGACTCCTACAACTGCACCGGCGACCA
GATGGGCAAAGGGCTGGCAAGGAAGTGCTGAAACTCGCCCTCTCCTGTT-TATAATCTAGTTATAGTATGTATTTACAAT
GTATCGGATTGTTGAACTATGTGACTTA--CGC--ATTTGGTGATCTTTTGGGTGATGTTTATGTGAATTATGCCCATTT
GGTATCAGTTTATATGTTTGTTTCATGTCAATTTT---GATCGTTTCGTGATCTACATACTAGTTGCATGAATTTGTATG
GATATAGGGTTCGAAATATGAGATACGCGGGTGTGGAGGCCCGAATTTAGAGAGTGCCCGGTGAATATCCACGGGCATGC
ACGGACGCATCCGCGGACATATAGGGCTCCGGATTTGCCAACTCCGCCTGTAGATGCTCTTACGTTGATT----------
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>chr4A_12
-----------GTGGCCAAGCTCAAGCGCAAGAAAGACCGCACCGTCCAGTGCTTGCAAGGCTACAAGTCAT--------
--CTCCTCC---------TCTGACGGCTGCGACGTCGACCCACCTCCTGCTGCGGACGCATATAACACCGCCGACGACCG
GAAGGGCAGAGAACCGACGAGGAAGTGGTGAAGCTCGCCCTCTACTTTTATATAATCTAGTTCTAGTATGTAGTTACAAT
GTGCCGGATTGTTGAATTGTGTGACTTA--TGCCCGTTTGGTGATCTTTTG--TGATGTTTATGTGAATTATGCCTGTTT
GGTACCAGTTTATATGTCCGTTTCCTGTCGATTTT---GATCGTTTGGTGATCTATGTAGTAGTTGCATGAATTTGTATG
AATGTAGGATTCAAAATATGAGATACACGGGTGCGGAGACGT-GAATTAAGGAGTGTCTGATCCGTGTCCGCGGGCGTGT
CCAGGTGCGTCCGTGGACATGTAGGGGGCCGGATTTGCATGG-CCGGGTGTAGATGCTCTTA------------------
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>chr4A_553
GGGCGGTA------------------------------------------------------------------------
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------------------------GGCTCTTCGCCCTACAGAGCCAAGAAATCGAGCTGAAGATCATGGACGCATGCAG-
-ACCTTTCCCTGGAAAAGATGGCGTGCGCGCGTACGTACCTTCAATCGCACTGCATCAATCT------CCCAGATA-CGC
CTCCGGGAATTAAGTTCTCGTCATCCCCTGGCCGGCCTCGATTCCAGGGGCGCATGGCATGCATCAAACTGGCCTCGCTG
TCGCACGATCCAGAGAAAAGTGGCGACGCATCCATCACCTGTTGACCATGGCACGCACTCTTGCAGCGCTGT-CCGGCTG
CGTGTCGCTCGCGTCGGCGCTAGCTTCAGACTTGCGCATCGCTCGACGCCTTTGCCCGCGCTATAAAGATCGCCAGCCTC
GGGGCATGCAAAGGCACCCACGTACGACAAGAAAACTGCACCATTGCACACCAGTGCTAGTGTGTGACACGCCACTATGA
GGTCTCTGCAGGCTGTGCTCGTGGCGGTCCTCGTCCTGCTTGCCGTCGCCGCGACGACAGACGCCGCGTGGGCGCCGATA
CCGGATCGCGACCTGAACGGCATGGTGGTGCAGCAGGCGGGCCGGTTCGCCGTGCTCGTGCATGACATCACGCGCCGGAC
GACCCTGGTGTTCGTCAAGGTGGAGCGCGGCGAGATGGAGCGGCCGGCGGGCGGCGGCCTCGGCACCAACTACAGGCTCG
TGGTGACCGCGGCGAGGGCGCCCGGCGGGAGCAGGGGCCAGTACGAGTGCGTCGTGTGGGGCGTGCCCGGCTCGCGCACC
AGCACCTGGAAGCTCCTCGGCTTCAAGGCGCTCTAGCTACATGCATGGCCACCGAGCACTCGTACGTGTGGGTGTGACGG
TCCGAGGCAAAGCCGCGCGCGTACTCCGCTGAATAATCTACGTTTCCCCGGCATATAGTATGTGCATGGGTTTTTTAAGT
ACTGGTACACGTCGTTTAATTTGTTACGCGAGTAAGGCACGGCAAATACCTGTCTGCGTGCAGTCCGCACACAGTAGCGC
CGGAAT----AAGCAAGTCCGCACAG----------TCTTTTTTGTCATCACTGCCCGAATGATATATGTTGGTGATTTT
ATAAGAGTCTGGATACTGTGATTGTTCTCAAAGGTGTTTTCCCTATACTCCACTATAATTCCAGCGTCAAATTTTTGAAC
ATGGCAAATCAAATGTTTTTTTATGATAATATGTGTTTGCCGATGATGGCAAATTTAGTTGATATGCATGTCAAATCCGT
CTCAGTTT-----TTTTTTTGTCAGGGAATTTTTGTGCTCGTGAACTAAATTTGCCATAAGGGCAGCCCCAGTGCATGTA
GCTCCCGCTTGTGCAGGGTCTGGGGAAGGGTCCGACCACTTTGGGTCTATTGTACGCCGCCTTTCCCTACATTTCTGTAA
GAGGCAGTTTCCAGGACTTGAATCCGTGACCTCATGGTCACAAGGCAGCAGCTTTACCACTGCGCCAAGGCTCCCCTTCG
TGAACTAAATTTGTCATAAAAAAATTAAATTTTCCATGCTTAAAAAAATTGACGTCAGATTTTTTGCATTACCGTTTTTC
TATACCAATTACGAAATAAGAGAGATTATAGTAACAAGTACAATGCATTAGTAGGAGATTGTGCTGTCTACCTTCAATCT
CCACATCCTGGAAAGAAGAAAACATAGGTGATTCTCACGCATTAGCAAAGCTCAAAACTTGCTAGTCCTACTTCCCGCGG
TTGGCCGATCTTCGGGGGACTGCGTAAACCTAACACATCCGGCTAAAATCGTTCTCGTCCTGAAAAAGCCCGAGGCCACA
AAAGTCGAAGACTAACACC-------------------------------------------------------------
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>chr4B_556
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------------------CGGTCGGGCTCACTGCCCTACACAGCCAGGAAATCGCGCTGAAGATCATGGACGCATGCAAA
ATCCTTTCCCTGGAAAAGATGGCGTGCGCGCGTACGTACCTTCGATCGCAATGCGTCAAGTTTCAACGCCCAGATATCGC
CTCCGGAAATTAGA-CCTCGCCGTCCCCTGGCCGGCCTCGATTCCGGGGGCGCATG-----CACCAAGCTGGCCTCGCTG
TCGCACGATCCGGAGAAA-GTGACCACGCATCCAT--CCTGTTGACCATGGCATGCACT--TGCAGCGCTGTCCCGGCTG
CGTGTCGCTCGCCTCGGCGCTAGCTTCGGACTGGCGCATCGCTCGACGCCTTTGCCCGCGCTATAAAGACCGCCGACATC
TCGGCATGCAAAGGCACCCACATACGACAAGAAAACTGCACCAGTGCACACCAGTGCTAGTGTGTGACACGCCACCATGA
GGTCTCTGCAGGCTGTGCTCGTGGCGGTCCTCGTCCTGCTCGCCGTCGCCGCGACGACAGACGCCGCGTGGGCGCCGATA
CCGGACCGCGACCTGAACGGCATGGTGGTGCAGCAGGCGGGCCGGTTCGCCGTGCTCGTGCATGACATCACGCACCGGAC
GACCCTGGTGTTCGTCAAGGTGGAGCGCGGCGAGATGGAGCGGCCGGTCGGCGGCGGCAACGGCACCAACTACCGGCTCG
TGGTGACCGCGGCGAGGGCGCCCGGCGGGAACAAGGGCCAGTACGAGTGCGTCGTGTGGGGCGTGCCCGGCTCGCGCACC
AGCACCTGGAAGCTCCTCAGCTTCAAGGCGCTCTAGCTGCATGCATGGCCACTGAGCACTCGTACGTGTGAGTGTGATGG
TCCGAGGCAAAGCCGCGCGCGTACTCCGCTGAATAATCT-----------GCATATAGTATGTGCATGGGTTTTTTAAGT
ACTGGTACACGTCCTTTAATTTGTAACCCGCGT-AGGCACGGCAAATACCTGTCTGCGTGCAGTCCGCACACACTAGCGC
CGGAATAAGTAAGTTGTGACTATCACCCAGTATACTTCTTTTTTGTCATCACTGCCCGAATGATGTATGTTGGTGATTTT
ATAAGAGTCTTGATACTATGATCGTTCTCAAAGGTGTTTTCCCTATACTCCACTATAATTCAAGCGTCAAATTTTTAACC
ATGACAAATCAAACG-TTTTTTATGATAATATGTGTTTGCCGATGATG---AATTTAGTTGATAAGCATGTCAAATCTGT
CTCAATTTATTTA-TTTTTTGTTAGGGAATTTTCGTGCTCGTGAACTAAATTTGGCAT----------------------
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------------------AAAAAGTTAAATTTTCCATGCTTAAAAAATTTGATGCCAGA---TTTGCATTACCGTTTTTC
TATACCTATTACGAAATAAGAAAGATTATAGTAACAAGAACAATGCATTGGTAGGAGATTGTGCT---------------
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>SNPs
-----S-----------------------S--------------------------------------------------
--S-S-------------SS----------------------S-----------------------------S-------
------S-------------------------------------------------------------------------
-----------------S----------SS------------------------------S----------S--------
--------------------------S--------------------S--------------------------------
-----------------------------S----------S------------------S-----S--S-----------
-----------------S------------------------S--------------------S------SSSSSSSSSS
SSSSSSSSSSSSSSSSSS----S------------------------------S--------------------------
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-----------------------S----------S---------------------------------------------
--------------------------S-----S-----S--S--------------------------------------
---------------------------------------------------------S----------------------
----------------------------------------------------------S-----S--S------------
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---------------------------------------------------------------S----------------
---------------------------------------S----------------------------------------
-------------------------------------S------------------------------------------
----S---------------------------------------S---S-------------------------------
---S-----------S------------------------------------------------S---------------
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----------------------------------------------------------------------------S---
----S-----S---------------------------------------------------------------------
--S-----------------------------------------------------------------------------
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--------------------------S--------------S-------------------------------S------
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------------S--------------S----------------------------S----S----S------S------
-------------------SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
>forward_258
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------------------------------------------------------------------------------AT
GTGCCGGATTGTTGAACC--------------------------------------------------------------
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>reverse_2474
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-------------------------------------------------------------------------ATACAAC
TCCTGGTGCTCGC-------------------------------------------------------------------
-------------------------------------------------
