>input_sequence_85982
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---------------------------------------------------------ATGGCGTCGCGGCCGTCGCTGAA
GCCGAAGCCGAAGGGCAAGGGTGCGAAGAGGGGCTCGTCCGCGGCCGAGGACGAGCAGTCCACCGCGGCGGTGGCGGTGC
AGCTCGCCAAGGAGTGGAGCACGTGGACGATGAAGACGGCGAAGGTGGTGGCGCACTGGGGCTTCATCCCGCTCATCATC
GTCGTCGGCATGACTAAGGGAGACGAGCCCAAACCTAGCTTGCTCCAGCTTCTGACCCCCGTCTGA--------------
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>chr3B_1_TraesCS3B01G255900
TTTAAAAAATAACTTTTTTGAAATTGTTAACAATTTCCGAATCCTGGACACTTTTTTCCAATGGTGAACAATTTTTTGAT
CATGCGAACATTTATTTAACAACGTGAACAAATTTCAAATTTCGTTTTTATATAAACGTGAGCAAATTTTCAAGAAAGTG
GTCATTTCTTGAAATTTTGAACAATTTCAAAATTCCAAACAAATTTGGGAACC------------------CCTGAACAT
TTTTTGAAATTCTGGAACGTTTTTTAACCTGTGAACAAATTTTGAAAACCAGAAC--TTTTTTGGAATTCAAGAAAATTT
GAAACCACGAATATTTTTGGAAAACTCT-GAACATATTTTGAATTTGTAAACAAATTTCAGAAAAAGGGAAC---TTTTT
TTAACCCTGAGCCTTTTTCA-----------------AAAC--GTATTTTTTTCTAAATTTGTGAACAAAATTGAAAAAA
-GGAACAGTTTTT-AAATTCGGAATTCAAATTTTTCTAAAATAAAAAAATTGAAAAAGACATGAATTGAAAAGGAA----
-------ACAGAAAAAAAACATAAAACTTGAAAAGGGAGAAAGAAGAAAAGAAATAGAAACAGAAATT-------AAAAA
AGGAAAATCTGAAAAGCCAAAA--CCAGTAAAAACCGCCTCGGGAACCAAACCGGGATCCTGTGGCACGGTAAATCGACC
AGCAGAAAAGAAAATCGACCAGCAGTGGGCCGGCCCATGTCGTTCGCTCGCACCTGTTCCCTGT----------------
-----GCAGTTAGCTTCAAATAGAA-------TGTCCACAATGCTCAGCGCCTGGTTACTTGGAAAGTTTGGCCCAATTC
AAAGATAAGCCTAGCCCAATAGCATTTGAGGACCCTTGAGAGGTCTCCCAGAGAGATACTACTGTAGTTGCTAACCAAAC
ACGAGAAGGACTGGCCCAGGAAGCAGCCAATATTAACCGGAAACAACGCACCAGATCAAACGA----TCAACGCATCCCC
AAAGGCCACATCTCTAGGGTTTTCGTCCAGCGAATCGAAGAATCAAGAGGAGTCGCCATGGCGTCGCGGCCGTCGCTGAA
GCCGAAGCCGAAGGGCAAGGGTGCGAAGAGGGGCTCGTCCGCGGCCGAGGACGAGCAGTCCACCGCGGCGGTGGCGGTGC
AGCTCGCCAAGGAGTGGAGCACGTGGACGATGAAGACGGCGAAGGTGGTGGCGCACTGGGGCTTCATCCCGCTCATCATC
GTCGTCGGCATGACTAAGGGAGACGAGCCCAAACCTAGCTTGCTCCAGCTTCTGACCCCCGTCTGATCCAATCCCCGGCG
AGCCCTAGACTGGATCGATCCATCTCCTTTTAGTTACTA--CTAGTAGATGTTTTTGCTGTTTATTGAATCCTGGTGGTT
GAGTTCTTGATCCCTGGGTGGTGATCTTTTATCTGATCTGTGTCTAATAATGTTATGTGGTCGGATCGATCCTGGATTGG
ATCGGATCTTGTTAGATACCTGAGATGCTACAGATCTGCTATTAATATATTGTGCTATGTTGAACTTTCAGTGTTAGTTG
TCT-GAGTTGTATTTCTCTGCCTGATGCGTGTGTATGTTTTAAGTGAACTAATTGCTTTGATTGATTAACAGTAAGCAGT
ACTGCTCATTATTGCTGTGTTGCGTAATTTTGGTACTCTTGGTGCCTGACTGCTCGTTCATTCAGTCCACAATGCTAGCA
GAAGCTTTGCTGTTTCAGCAGCCTAGATGGATTTATGGAACACCAGAATGCATGCCAGTTGATTGAGGCCATGGCTAATT
AGTTAGTCGTGAAACAGCCTAGATGGATTTATGGAACACCAGAATGCATGCCAGTTGATTGAGGCCATGGCTAATTAGTT
AGTCGTGTTGTTGTTGGGACACACAGTTTATACCTGATATATAAGGTTGTTCTAAAGAATTGTCTTCTTGTAAAGGAACT
GCAATGTTGTT---AAGCTGTCATCCCCTCGCAACTGTGAAATCATTTGTCACCCTCCAAGCGAACATTCACCAGCTAAG
GGTCCTTAATATTAAGGCACTTACAAATAGTAAGCCGTGTTTAACGATTGCCACAGA-AATTTTTGCGATGAGGACTAGA
CAGACAACGTTTTGCCGTTGTATGGTGTCTAATTTCATACTACAAATTATGATATGATTTGTCTACATCACTGTATGTAA
AGATTAATTGTCTGAACTATTGTTATGTCCTTAAGAAGTTGACGTTTAACTTTAACTTGCTGTGATCATCACACTTCTGT
TTGTGTACATGTATTTCGAATTCCAACTTATAC
>chr3A_1
TTTAAAAAAGAACATTTTTGAAATTCTTAAAATTTT-CGAATCCCAGACGTTTTTTTCCAATGGTGAACAATTTTTCGGA
CATGAGAACATTTATTTAACAACGTGAACAAAATTTCAAATTTCTTTTTCTATAAACGTGAGCAAATT-TCAAAAAATTG
GCCATTTCTTGAAATTTTGAACAATTTCAAAATTCCAAACAGATTTGGGAACCCCCTGAACAATTTTGAGACCTGAACAT
TTTTTGAAATTCTGGAACGTTTTCTAACCTGTGAACAAATTTTGAAAAACAGGAAAAA--TTTGGAATTCAAGAAAATTT
GAAACCACGAACATTTTTGGAAAACTCT-GAACATATTTTGAATTTGTGAATAAATTTCAGAAAAAGGGAAC---TTTTT
TTAACCCTGACCCTTTTTCA-----------------AAACGTA-TTTTTTTTCTAAATTTGTGAACAAAATTGAAAAAA
-TGAACA-TTTTT-TAATTCAGAATTCAAAATTTTCTAAAATAAAAAATA-----------------GAAAAGGAA----
-------ACAGAAAAAAAAGATAAAACTTGAAAAGGAAGAAAGAAGAAAAGAAACAGAAACAGAAA-T-------AAAAA
AGGAAAATCTGAAAAGCCAAAAAACCAGTAAGAACCGCCTTGGGAACCAAACCGGGATCCTGTGACTCGGTAAATCGATC
AGA--------------------AGTGGGCCGGCCCATGTAGTTCGCTCGCACCTGTTCCCTGTGCGTTTCAATGAAAGT
TTGTCGCAGTTAGCGTCAAATAGAATATTCGGTGTCCACAATGCCCAGGTCCTGGCTACTTGGAAAGTTTGGCCCAATTC
AAAGATAAACCTAGCCCAA-AGCATTTGAGGACCCATGAGAGGTCTCCCAGAGAGATACTACTGTAGTTGCTAACCAAAC
ACGAGAAGGACTGGCCCAGGAAGCAGCCAATATTAACCGGAAACAACGCACCAGATCAAACGACAGATCAACACATCCCC
AAAGGCCACGTCTCTAGGGTTTTCGTCCAGCGAATCGAAGAATCAAGAGGAGTCGCCATGGCGTCGCGGCCGTCGCTGAA
GCCGAAGCCGAAGGGCAAGGGTGGGAAGAGGGGCTCGTCCGCGGCCGAGGACGAGCAGTCCACGGCGGCGGTGGCGGTGC
AGCTCGCCAAGGAGTGGAGCACGTGGACGATGAAGACGGCGAAGGTGGTGGCGCACTGGGGCTTCATCCCGCTCATCATC
GTCGTCGGCATGACTAAGGGAGACGAGCCCAAACCTAGCTTGTTCCAGCTTCTGTCCCCCGTCTGATCCCATCCCCGGCG
AGCCCTAGACTGGATCGATCCAGCTCCTTTTAGTTACTA--CTAGTAGATGTTTTTGCTGTTTATTGAATCCTGGTGGTT
GAGTTCTTGATCCCTGGGTGGTGATCTTCTATCTGATCTGTGTCGAATAATGTTATGTCGGTGGATCGATCCTGGATTGG
ATCGGATCTTGTTAGATACCTGAGATGCTACGGATCTGCTATTAATATATTGTGCTATGTTGAACTTTCAGTGTTAGTTG
TCT-GAATTGTATTTCTCTGCCTGATGCGTGTGTATGTTTTAATTGAACTAATTGCTTTGATTGATTAGAAGTAAGCAGT
ACTACTCATTATTGCT-TGTTGCGTAATTTTGGTACTCTTGGTGCCTGACTGCTCATTCATTCAGTCTACAATGCTAGCA
GAAGCTTTGCTGCCTCAGCAGCCTAGATGGATTTATGGAACACCAGAATGCACGCCAGTTC-------------------
---------------------------------------------------------ATTGAGGCCATGGCTAATTAGTT
AGTTGTGTTGTTGTTGAGT--CACAGTTTATACCTGATATAAGG--------------------TTGTTCTGAAGAA---
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>chrUn_7
------AAATAACACTTTTGAATTTGTCCACATTTCTCGAATCCCAACCA-TTTTCTCCAATTGTGAACATTTTT-TGAA
CATGCGAACATTTATTTAACTATGTGAACAAATTTTGAAATTTCATTTTTTATAAATGCAAACAAAAT-TTGAAAAAGTG
ATCATTTCTTGAAATTTGGAACACTTTCAAAATTCTGATTTT-TTTGGAAACC------------------CCTGAACAT
TTTTTAAAATTCTCAAAC-AATTTTAACCTGTGAAGTGATTTTGAAAAAAGGAATA-TTTTTTGGAATTCAAGAAAATTT
GAAACCACGAACATTTTTGGAAAACTCCCGAACATATTCTGAATCTGTGAACTAATTTTAGAAAACA-GGAT---TTTTT
TTAAAGATGAACTTTGTTATAATTTTGAACATGATCGAAAC--A-TTTTTTTTCCAAATTTGTTAACAGAATTAAAAAAA
-GGAAGA-TTTTAAAAATGCTATATTCAAATTTTTCTAAAATAAAAATTT-----------------TAAAGAAAGAGGA
AAATC------------------AAACTTGAAAAGAAAGAAAAAATAAAATAAACAGAAACAGAAAAAATAAAAATAAAA
GGAAAAATCTGAAAAGCCAAACAACCAGTAAAAACCGGCTTGGGAACC--------------------------------
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>chrUn_7
------AAATAACACTTTTGAATTTGTCCACATTTCTCGAATCCCAACCA-TTTTCTCCAATTGTGAACATTTTT-TGAA
CATGCGAACATTTATTTAACTATGTGAACAAATTTTGAAATTTCATTTTTTATAAATGCAAACAAAAT-TTGAAAAAGTG
ATCATTTCTTGAAATTTGGAACACTTTCAAAATTCTGATTTT-TTTGGAAACC------------------CCTGAACAT
TTTTTAAAATTCTCAAAC-AATTTTAACCTGTGAAGTGATTTTGAAAAAAGGAATA-TTTTTTGGAATTCAAGAAAATTT
GAAACCACGAACATTTTTGGAAAACTCCCGAACATATTCTGAATCTGTGAACTAATTTTAGAAAACA-GGAT---TTTTT
TTAAAGATGAACTTTGTTATAATTTTGAACATGGTCGAAAC--ATTTTTTTTTCCAAATTTGTTAACAGAATTAAAAAAA
AGGAAGA-TTTTAAAAATGCTATATTCAAATTTTTCTAAAATAAAAATTT-----------------TAAAGAAAGAGGA
AAATC------------------AAACTTGAAAAGAAATAAAAAATAAAATAAACAGAAACAGAAAAAATAAAAATAAAA
GGAAAAATCTGAAAAGCCAAACAACCAGTAAAAACCGGCTTGGGAACC--------------------------------
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>chr3D_232
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---------TTCTAGAAC-TTTTTTAACATGTGAAGAAATTTTGAAAAACATGAACTTTTTTTGGAATTCAAGAAATTTT
GAAACCACGAACATTTTTGGAAAGCT-CCAAACATATTTTGAATTTGTGAACAAATTTCAGAAAAAGAGAACTTGTTTTT
TTAACCTTGAACCTTTTTTAAACGTA-----------------A-TTTTTTTTCTAAATTTGTGAACAAAGTTGAAAAAA
-GGAACA-TTTTTAAATTTTGGAATTCAAACTTTTATAAAATAAAAAATT-----------------GAAAAAGAATAGA
AAAATAAACAGAAAAAAT--ATAAAACTTGAAAAGGAAGAAAGAAGAAAAGAAACAGAAACAG----------AAAAAAA
GGGAAAATGTGAAAAGCCAAAAAAGCAGTAAAAACCGCCTTGGGAACCAAATCGGGATCCTGTGGCATGGTAAATCGACC
AGC--------------------AGTGGGCCGGCCCATGTCGTTCGCTCGCACCTGTTCCCTGTTCGTTTCAACGAAAGT
TTGTCGCAGTTAGCGTAAAATAGAATATTCGATGTCCACAATGCCCAGCGCCTGGTTAGTTGGAAAGTTTGGCCCAATTC
AAAGATAAACCTAGCCCAATAGCATTTGAGGAGAGGT---------------------------------CTAGCCAAAC
ACGAGAAGGACTGGCCCAGGAAGCAGCCAATATTAACCGGAAACAACGCACCAGATCAAACGACAGATCAACACATCCCC
AAAGG--------CTAGGGTTTTCGTCCAGCGAATCGAAGAATCAAGAGGAGTCGCCATGGCGTCGCGGCCGTCGCTGAA
GTCGAAGCCGAAGGGCAAGGGTGGGAAGAGGGGCTCGTCCGCGGCCGAGGACGAGCAGTCCACCGCGGCGGTGGCGGTGC
AGCTCGCCAAGGAGTGGAGCACGTGGACGATGAAGACGGCGAAGGTGGTGGCGCACTGGGGCTTTATCCCGCTCATCATC
GTCGTCGGCATGACTAAGGGAGACGAGCCCAAACCTAGCTTGCTCCAGCTTCTGTCCCCCGTCTGATCCAATCCCCGGCG
AGCCCTAGACTGGATCGATCCATCTCCTTTTAGTTACTATACTAGTAGATGTTTTTGCTGTTTATTGAATCCTGGTGGTT
GAGTTCTTGATCCCTGGGTGGTGATCTTTTATCTGATCTGTGTCTAATAATGTTATGTGGTCGGATCGATCCTGGATTGG
ATCGGATCTTGTTAGATACCTGAGATGCTACGGATCTGCTATTAATATATTGTACTATGTTGAACTTTCAGTGTTAGGTG
TCTTGAGTTGTATTTCTCTGCCTGATGCGTGTGTATGTTTTAATTGAACTAATTGCTTTGATTGATTAAAAGTAAGCAGT
ACTGCTCATTATTGCTGTGTTGGG-AATTTGGGTATTCTTGGTGCCTGAATGGTCATTCATTCAGTCTACAATGCTAGCA
GGAGCTTTGCTGCTTCAGCAGCCTAGATGGATTTATGGAACACCAGAATGCATGCCAGTTGATTGAGGCCATGGC-----
-------------------------------------------------------------------------ATTAGTT
CGTTG---TGTTGTTGGGACACACAGTTTATACCTGATATAAGG--------------------TTGTTCTGAAGAAACT
GCAATGTTCTGAAGAAGCTGTCATCCC-----------------------------------------------------
-------AATATTAAGGCACTTGCAAATAGTAAGACGTGATTAACGATTGCCACATTGAAATTTTGTGACGAGGACTACA
TAGACAACGTTTTAACGTTGTATGGTGTCTAATTTCATACAG---ATTATGGTACTATTTGTTTACATCACTGTCTGTAA
AGATTAATTGTTTGAACTATTGTTATGATCTTAAGAAGTTGACGTTTAACTTTAACTTGCTGTGATCATCACACTTCTGT
TTGTGTACATGTACTTCGATTGCCAACTTATAC
>SNPs
-------------S------------------S---S-------SS----S----------------------------S
-----------------------------------SS--S--SS-----S------------------S----S------
-----------------------------------------S--------------------------------------
------------------------------------------------S-----S-------------------------
-----------S------------------------------------S-------------------------------
----------S--------------------------------S-S----------------------------------
-------S----------------------------------------S-SSSSSSSSSSSSSSSSS-------------
-------------------S----------------S-----------------S-----------S-------------
----------------------------------------S---------------------------------------
---SSSSSSSSSSSSSSSSSSSS---------------------------------------------------------
--------------S-----------------------------S-----------------------------------
--------S--------------------------S--------------------------------------------
------------------------------------------------------------------------S-------
---------S----------------------------------------------------------------------
-----------------------S--------------------------------------------------------
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------------------------------------------------------S-------------------------
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-------------------------------S------------------------------------------------
-------------------------------------------S-------------------------S----------
-------------------------------------------------------S-----------S------------
------------S--------------------------------------------------------------SSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS-----------------------
---S-------------------------------------SSSSSSSSSSSSSSSSSSSSSSS--S--S-S---S----
--------S-S----------------SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSS---------------S-----------S----S---------------SS---S-----S--S--------S-
S------------SS-------------------------SSSSS------S--SS------S-----------S-----
-----------S---------------SS---------------------------------------------------
-------------S-----S-S-----------
>forward_815
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---------------------------------------------------------------------------TGTTC
CCTGTGCAGTTAGCT-----------------------------------------------------------------
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>reverse_1888
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-----------------------------------------------ATGCCAGTTGATTGAGGCCA-------------
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