>input_sequence_86739
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-------------------------------------------------------------------ATGAGAAGCTTCT
TGCCTCTGTGCGCGCTCCTCCTCGTCCTGCTCTCCTTGGCGAGCCTCACGGACGTCACGGAAGGAAGGTTCCGAGCCGCA
GGCGGCGGCGCCCGAAGCAGCAGCAACAGCAGCAGCGGCGGCAGCCCGGGTAGCCTGAGCAGCGGCACCTGGGCGGCGTG
CGTCGGCTCCACACTGCTCGCCGCGGCGCCCATGCTGCTGTAA-------------------------------------
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>chr3D_1_TraesCS3D01G320900
CGCCGGGCCCCCTCGTCGGGTATCCGTCGGCGGTGATGCGGAAGACGTGCGGCAGACGGCAGCCCGGCGACACCATCAAC
CCGAGCCGGATGAGCTCGTCGGTTTCCGGCGTGCCCAGGCTCGTCGGCCACGAGCCGCCACCGCCGTCAGTGCCGCCGCT
GCCGCCGGACGCCATGGATGCCACCGAGATGGGAACACGTCGTCGGTGGAGTGAGGGCGCGTCTGGTGGAAGGCGTCGGT
GGGTGAGGCGAGTGGGGGTGGGGGAGGCAGACGGGAGATGGAGTGTTTTAAGGACGGGCGGGGCGGC-GGTAGGTGACCG
ACGCACCGGCTTAACGCCGGCCCTAATGGCGCATCGGGG-CGGCGGC----CGCCTCGGGAACCGTCGCTTGACCGACGC
CACGACGCCACGCAA-CCTCCCTCGATAGGTCGCGTCGTGTTGACCGACGCCACG--------C---AACTGTCCGTCGA
CAGGTCGTCGTATT-----TTT--C--------------------------------------------------TTTTT
TTTCCTTGACCACGACTGGACATTGTCGTACGTACACCTCGACAGGTCGGGTCGTGTTTTTTTCCTTCATACGTAGACGG
CCCGACACGT---------------------ACGTAGACGGGCGGGCGCGTGTACGGGGCAGTCGCCGTACAGGACCTGG
CACGGGTATAGCCTCGTCGCGTGGGCGGTACAGCCCCGTCGCGTGGGCGGGGGCTTTT-TTTGTGATGAGACGATCCTAC
CTTTTT-AACGAAGGGGTACGGAGCGATCTTAGCCGTTGTTGTATTTA-GGGGTTGTACGGAAGAAGAAGTGCTTAGCCA
AACTGTTCAAATATTTAGTACTATGCTCTCTTGGCTGTGGACCCATGACGTGTAGTACCACTAGTCAACAGATCTTGCCG
GGTCAACTCTGGACCAGGCATAAAGATCCATGAGCAGAGCAGCTGCCCACACCCACAGCATCGGAGTTGGAGGCGACAGC
A-----ACCACACACCAAACCTACAAGCTGCCTGCGCTGGCCTGGATACCTTGAAG---ATCACAAGATGAGAAGCTTCT
TGCCTCTGTGCGCGCTCCTCCTCGTCCTGCTCTCCTTGGCGAGCCTCACGGACGTCACGGAAGGAAGGTTCCGAGCCGCA
GGCGGCGGCGCCCGAAGCAGCAGCAACAGCAGCAGCGGCGGCAGCCCGGGTAGCCTGAGCAGCGGCACCTGGGCGGCGTG
CGTCGGCTCCACACTGCTCGCCGCGGCGCCCATGCTGCTGTAAGCTGCTCTGCATCAGCTGGCACCTAGCGATTCTGTGA
TACGGCTGGC-------TAGCAGCCCAGCATATGTGATTTTTGTGGTGTGCAATTTGGGCTTTGGGGTGAAGACTCAAGA
GGCATGGAGTTGGATACATTTTCTTCCTCTCCCTTGACTCCTTTGGATGGCAGCTTCATGTGATTGCAGTGTGTTTTTCC
AGTTCAAATTACTACTTTGTCATATTATGATATACACATCGTCTTCAAAATAGCACTTTGTCACTAATTTCC--------
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----------------------------------------------------GTGCAAACATGGTTCCTCATGCAAAGGT
AATTTAGATGCAGAGTCTAGTGTTATAAACCAGCTATTTTAGATGCAGGGAGCAGGGTCAAACAAAAATGTTTGGATAGC
ATAATTCGAAAAGGACTCCTACGTTTTATATCAGAGGCAGTAGTTTTCATTTTTCCGTTTGAGGT---ATAGGACGTAAT
GGTTTTTTTTTTTTCAAAAATATCAGATCTATTATAAAGATTCATCGAAAGTACAAAGCACCCCAAACATAATAGAAATT
ACATCGAGGTTAATGGACAAGCGAGCGACCATTGCCGCCGACAGAACGCGCCACAGTCGTGCCTCCCATACAGAGCCGGC
AT-GACCTTGTCGATGACAGCCAGAAAGTCTTCGTGCACGCGCCTCTAAGGATCAGCGTTCGGGAGCCGTAGACGTGGCT
ATTGAATCCTTCAATCGATCTGAAGAACCTGACACCAAATTTCGCCGTTGCGTACGCACGACGAGAAACTCTAACCTCGC
TGTTCCGAGGAGCTGACAGGAATCTACGCCGGAGTTCCGTTTAACCCGTCCCGACATATAATAGTTGGTTAAACATATTT
AGAATATATATCCTCCTGGCATATTTTTTAAACA--GTATACACACAGACGCTCATACATACACACATACACTCACCCCT
ATAAACGCACACACGCACATCCTACCTATATAAGCACCTTCGAGAGACTGAGTCGGCACATCATCTTGACATTGAT
>chr3D_1
CGCCGGGCCCCCTCGTCGGGTATCTATCGGCGGTGATGCGGAAGATGTGCGGCAGACAGCAGCCCGGCGGCATCATCAAC
CCGAGCCGGATGAGCTCGTCGATGTCCGGCGTGCCCAGGCTCGTCGGCCACGAGCCGCCATGGCCGTCACTGTCGTCGCT
GCCGCCGGACGCCATGGATGCCGCCGAGATGG-AACGCGTCGTCGGTGGATTGAGGGCGCGTCTGGTGGAAGGCGTCGGT
GGGTGAGGCGAGTGGGGGTAGGGGAGGCAGACGGGAGAGGGAGTGTTTTAAGGACGGGCGGGGCGGC-GGTAGGTGACCG
ACGCACCGGCTTAACGCCGGCCTTAATGGCGTATCGGGGGCGGCGAC----CGCCTCGGGAACCGTTGCTTGACCAACGC
CACG--------CAATCCTCCCTCGACAGGTCGCGTCGTGTTGACCGACGCCACGACGCCACGC---AACCGTCCGTCGA
CAGGTCGCGTCGTGTTTTTTTT--C---------------------------------------------------TTTT
TTTCTTTGACCACGACTGGACGTCGTCGTACG-----------------------------------------TAGACGG
CCCGACACGT---------------------ACGTAGACGGGCGGGCGCGTGTAT-GGGCAGTCGCCGTACAAGACCCGA
CGCAGGTACCG-CCCGTCGCACGGGCGGCGGC-----------------------TTT-TTTTTTATGAAATGATCCTAT
CTTTTTTAACGAAGAGGTACTGAGCGATCTCACCCGTTGTTGTATTTAGAGGATTATATCGAAGAAGAAGTG--------
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>chr6D_1
CGCCGGGCCCCCTCGTCGGGTATCCGTCGGCGGTGATGCGGAAGATGTGCGGCAGACGGCAGCCCGGCAGCACCATCAGC
CCGAGCTGGATGA-------------------------GCTCGTCGGCCACGAGCCGCCACGGCCGTCAGTGCCGCCGCT
GCCGCCGGACGCCATGGATGCTGCCGAGATGGCAACGCGTCGTCGGTGGAGTGAGGGCGCGTCTGGTGGATGGCATCGGT
GGGTGAGGCGAGTGGGGGTGGGGGAGGCAGACGGGAGAGGGGGTGTTTGAAGGACGGGCGGGGCGGC-GGTAGGTGACCG
ACGCACCGGCTTAACGCCGGCCTTAATGGCACATCGGGGGCGGCGGC----CGCCTCAGGAACCATCGCGTGACCGACTC
CACGACGCCACGCAACCCTCCCTCGACAGGTCGCGTCGTGTTGACCGACGCCACGACACCACAC---AACCGTCCCTCGA
CAGGTCGCGTCGTGTTTTATTT--C--------------------------------------------------TTTTT
TTTCTTTGACCACGACTGGACGTCATCGTACG-----------------------------------------TAGACGG
CCCGACACGTACGCAGACGGGCCGACACGGCACGTAGACGGGCGGGCGCGTGTAT-GGGCAGTCGCCGTACAGGACCCGA
CGCGGGTACAGCCCCGTCGCGCGAGCGGCGGC-----------------------TTT-TTTGTGATGAGACGATCCTAC
CCTTTTTAACGAAGGGGTATGGAGCGATCTGAGCCGTTGTTGTATTTAGGGGGTTGTACCGAAGAAGAAGTGTTTA----
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>chr7D_2
-GCCGGGCCCCCTCGTCGGGTACCCATTAGCGGTGATGCGGAAGATTTGCGGTAGACGGCAGCCCGACGGCACAATCCGC
CCGAGCCAGATGAGCTCGTCGGTGTCCGGCATGCCCAGGCTCATCGGCCACGAGCTGCCATGGCCGTCAGTGCCGCCGGT
GCCGCCGGATGCCATGGCTACCGCCGAGAAGGAAATGCGTCGTCGGTGGAGTGAGGGCGCGTCTGGTGGATGGCGTCGGT
GGGTGAGGTGAGTCGGGGTGGGGGAGGCATACGAGAGTGGTGGTGTTTTAAGGACGGGCGGGGCGGCGGGTAGGTAACTG
ACGCACCGGCTTAACGCCGGCCTTAATGGCGCATCGGGGGCGGCGGCTAGTCGCCTCAGGAACCGTCCCTTGACCGACGC
CACGACGGCATGCA------------------------------------------------AC---AACCGTCCCTTGA
CCGATCGCGTCGTGTTTTTTATTTC---------------------------------------------------CTTT
TTCTTTTGAGCACGATTGGACGTCGTCGTACG-----------------------------------------TAGACGG
CCTGACACG--------------------GCACGTAGACGGGCTGACGCGTGTAC-GGACAGTCGCCGTACAGGACCCGA
CGCGGGTACATCCCCGTCGCGCGGGCGGCGGC-----------------------TTT-TTTGTGATGAGACGATCCTAC
CCTTTTTAACGAAGGGGTACGGAGCGATCTCAACCGTTGTTGTATTTAGGGGGTTGTACCGAAGAAGAAGTG--------
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>chr2B_5
----GGGCCCCCTCGTCGGGTATCCGTCAGCGGTGATGTGGAAGATGTGCGACAGACGGCAGCCCGACAGCACCATCAGC
CCGAGTCGGATGAGCTCGTCGGTATCCGGCGTGCCCAGGCTCGTCGGCCACGAGCCGCCATGGTCGTCAGTGCCGCCGCT
GCCGCCGGACGCCATGGC-GCCACCAATAAGGAAACTCGTTGTCGGTGGAGTGAGGATGCGTCTGCTGGATGGCGTCGGT
GGGTGAGATAAGTGGGGGTAGGGGAGGCAGGCGGA-GTGGTGGTGTTTTAAGGATGGGCGGGGCGGCGAGTAGGTGACCG
ACGCACCGGCTTAACACTAACCTTAATAGCGCATCGGGGGCGGTAGCTAGTTGCCTTGGGAACCGTCCCTTGGCCGACGC
CACGACACCACACGACCGTCCC------------------TTGACCGACGCCATGATGCCACGCGAGAACCGTCCCTTGA
CCGATCGCGTCGTGTTTTTTATTTC----------------------------------------------------TTT
TTGCTTTGACCTCGTCTGGACGTCGTTGTACG-----------------------------------------TA-----
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>chr4A_243
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--GTGAGGCGAGTGGGGGAGGGGGAGGCAGACGGAAGATGGAGTGCTTTAAGGATGGGCGGGGCGGT-GGTAGGTGACCG
ACGCACCGGCTTAACACCGACCTTAATGGCGCATCAGGGGCGGCAGC----CGCCTCGGGAACCGTCGCTTCACCGATTC
CACGACGCCACGCAA-TCTCCCTTGATAGGTCGCGTCGTGTTGACCGACGCCAC--------AC---AACTGTCCGTCGA
CAGGTCGCGCCATGTTTTTTTTTTTGACCACGACTGGACGTCGTCATACGTACACCTCGACAGGTCGCGTCCTGTTTTTT
TTTCTTTGACCACGACTGGACGTCGTCGTACG-----------------------------------------TAGACAG
CCCGACACGTACGTAGATGA---------------------GCGGGTGCGTGTAC-GGGCAGTCGCCGTACAGGACCTGA
CGCGGGTACAGCCCCATCGCGCGGGCGGCGGC-----------------------TTTTTTTGTGATGAGACGATCCTAC
CCTTTTTAACGAAGGGGTACGAAGCGATCTCATCCGTTGTTGTATTTAGGGGGTTGTACCGAAGAAGAAGTG--------
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>chr3A_781
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-------------------------------------------------------------------------------A
AACTGTTCAAATATTTAGTACTCTTCCCTCCTGGCTGTGGACCCATGACGTGTGGTGCGACTAGTCAACAGATCTTGCCG
GGTCAACTCTGGACCAGGCTTAAAGATCCATGAGCACAGCAGCTGCGCACACCCACAGCATC-GAGTTGGAGGGGAGAGC
A-----ACCACACACCAAATCTACAAGCTGCCTGCGCTGGCCTGGAAACCTTGGAG---ATCACAAGATGAGAAGCTTCT
TGCCTCTGTGCGCGCTCCTCCTCGTCCTGCTCTGCTTGGCTAGCCTCATGGACGTCACGGAAGGAAGGTTCCGAGCCGCA
GGCGGCGGCGCCCGAAGCAGCGGCAACAGCAGCGGCGGCGGCAGCCCGGGAAGCCTGAGCGGCGGCACCTGGGCGGCGTG
CGTCGGCTCCACACTGCTCGCCGTGGCGCCCATGCTGCTGTAAGCTGCTTTGAATCAGCAAGCACCTGGCGATTCTGTGA
TATGGCTGGCTAGCACCTAGCAGCCCAGCATATGTGATTTGTCTGGTGTGCAATTTGAGG--------------TCAAGA
TGGATGGAGTTGGATGCATTTTCTTCCTCCACCTTAACTCCTTCGGATGGTAGCTTTATGTGATTGCGGTGTGTTTTTCC
AATTCAAAATACGAATATGTCATATTACGATATCTACATCGTCTTCAAAATAGTACTTTGTCATTAATTTCCCACACCGA
GGGACAGGCCCAGGACAGGAACGAGCGGAATCAATGTGTTCTAATTTCTGCCCTTGCACCGACCATCCAACGGACCATGG
ATTAAACGGCCACTGCCTGAAAGGACTATGCTATGTCCAGGGGACCGCCGGTTCTAACCGCCTTTCCTTTAAGTTTCAGT
ATTTGAAACTCTTTCTAGAATTATATTGTTTATTTAGTATAGAATAGGAGAAGAAGGGCTTCATTGCCCCCCAGTATTCC
AGCATGTAGCTTTGAAAAAGGCAAGGTGTTGTTCAAGGTTTCCTATCCCATTCAACATTTTACATTTTGGCGCAATATAT
TATATCCCTTCCTTGGGGTACGGTACCATATCAAATTCATTTGGGCAACGGGATAATAAAGCGAACAAAGACCATAAAAA
GAGATTACAACATCCAGAACAAAGCCTATCAAGCCAACCTTCCCTCACTGCGGTGCAAGCATGGTGCCTCATGCAAAGGT
AATTTAGATGCAGAGACTAGTGTTATAGACCTGCTATTTTAGATGCAGTCAGGTCAAACC-----AAATGTTTGGATAGC
ATAATACGAAAAGGACTCCTACATTTTATACCACAGGTAGTAGTTTC---TTTTTCGTTCGAGGGACGATAGGATGTAAT
AATTTTCTTTTTTTGGAAAATATCAAAAATTTTATAAAGATTCATTAAAAGTACAAAACACCCCAAACATAATAAATATT
ACATCGAGGTCAATGGACAACCGAGCGACCATTACCGCCGCCAGAACGAGCCACCAGCGTGCCGCTGTCGCCCCTTCCAT
ACGGAGCTTGTCGATAACAACCGAAAAGTATTCGTGACAT-GCCCCTAAGGACCAGCGTTCGGGAGCCATAGTCGTCGCC
ATTGAATCCTTTAATCAATCTGAAAAACCTGACACCAAATTTCGCCGTTGCGTACGCACGACGAGAAACTCTAACCTTGC
CGCTCCGAGGAGCTGGCGGGAATCTACGCCGGAGCTCCGTCTAACCCGTCCCGACATGTAATAGTTGATTAAACATATTT
AGA--ATATATCCTCCTAGCATATATTTTTAACACAGTATATACGCAGATGCTCATACATAGGCACATACACTCAGCCCT
AG-AACGCACGCAGACACATCCTACCCCTATGAGCACCTCCGAGAGACTGAGCCGGCACATCATTTTGAGATTGAT
>chr3B_781
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-------------------------------------------------------------------------------A
AACTGTTCAAATATTTGGTACTCTGCCCTCTTGGCTGTGGACCCATGACGTGTAGTAATACTAGTCAACAGATCTTGCCG
GGTCAACTCTAGACCAGGCATAAAGATCCATGAGCAGAGCAGCTGCCCACACCCACAGCATC-CAGTTGGAGGCGAGAGC
AACCGTACCACACACCAAATCTACAAACTGCCTGCGCTGGCGTGGATACCTTGGAGATCATCATAAGATGAGAAGCTTCT
TGCCTCTGTGCGCGCTCCTCCTCGTCCTGCTCTGCTTGGCGAGCCTCATGGACGTCACGGAAGGAAGGTTCCGAGCCGCA
GGCGGCGGAGCACGAAGCA---GCAACAGCAGCAGCGGCGGCAGCCCGGGTACCCTGAGCGGCGGCACCTGGGCGGCGTG
CGTCGGCTCCACACTGCTCGCCGCGGCGCCCATGCTGCTTTAAGCTGCTCTGCATCAGCCAGCACCTAGCGATTTCGTGA
TACGGCTGGC-------TAGCAGCCCAGCATATGTGATTTGTGTGGTGTGCAGTTTGGGG--------------TCAAGA
TGCATGGAGTTGGATACATTTTCTTCCTCTCCCTCGACTCCTTCGGATGGCA----------------------------
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>SNPs
---------------------------------------------S-----------------------S----------
-----------------------S-------------------------------------S------------------
--------------------------------S---S-------------------------------------------
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----------------------S---------------------------------------------------------
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-------SSSS--S------------------------------------------------------------------
----S----------------S-S--------SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS-------
-------------------------------------------------------S-----------------------S
-S------S----S-------S------SSSSSSSSSSSSSSSSSSSSSSSSSSS-------------------------
------------------------------S----------------------------S------------S---SSS-
----------------------S---S-------------------------------S---------------------
--------------------------------------------------------------S-------------S---
-------------------S---------------------------------S--------------------------
---------------------------------S--------------S-------------------------------
---------------------S--------------------------------------S-------------------
-----------------------------------------------------------SS-------------------
----------------------------------------S------------------SSSSSSSSSSSSSSS------
S------------------------------------------S------------S----------S------------
-S------S---S-S-S----------S-----SS------------------S---------S----------------
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----------------------------------------------------------S------S--------------
---------------S-----------S---S----------------SS--SSSSSS-SSSSSS---------------
-----S----------------S-------S--S---S--------SSSS----S----S----S---------S-----
SS----S-------SS---------S-SS-S--------------SS----------S----------------S-S---
----------S---------S------------S------S-------S-----SSS------S-SSSSS-SSSSS-SSS
-S---S---------S---S--SS-----S------SSSSS---S-------S---------------S---S---S--S
-----------S----S-------S----------------------------------------------------S--
S-S------------S-S----------------S-----S----------------S---------S------------
---SS------------S------S----S-----------S--S----S-----------SS------------S----
-SS-------S--SS-----------SS---S-------S------------S-----------S----S------
>forward_606
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--------------------------CGTACGTACACCTCGACAGG----------------------------------
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>reverse_2402
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-TGACCTTGTCGATGACAGCC-----------------------------------------------------------
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