>input_sequence_78799
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--------------------------------------------------ACTCACTCGTCCAGACCACCCGCGACAGCG
CCCACCGCTCACCCACCAAGCAAAGGAACACACGCGCAACGACCG-----------------CCCCCGCGCGCGCGGTGG
TG-------ACCATGGACGCGCCGAGCGCCACCGCCAAGCGCAAGCGCTCCTCCC------------CC---GCC-----
----CCGGCCCCCGTCGGCGTCGACGACGTGTCGGACGCCGAGGTCGAGGAGTTCTACGCCATCCTGCGCCGCATGCGCG
ATGCCTCGCGCCGGCTCGTCTCGGGCGGGGTCGCCGCGGCCACGGCCCGCGCC---GCCCCGGCCCCGCGCGCGCCCGCC
TGGTGCCCCAGCTTCTCCTGGGAGGACTTCGCGCCGCCCGCCCCGCC---GCCGCCTCCTCCCTCGCAGCAGCAGCAGCG
GGAGCCCGCCGACGAGCGCGTCGCCGAGAACGGCACGCCGCCGCGGCGGCCGGTCCTCCGCGGCCTCGACCTCAACGCCG
AGCCGGAGCCCGAGGTGCAAGCCTAG------------------------------------------------------
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>chr3B_1_TraesCS3B01G040800
GTTTCTACTCACGAGCTCAAATACTCCCTCATGAACAGTAAAAATCAAACAAAAGGTAAAAAT-AATAAGTAGATCTGTT
TTTGAAAATAAACATTGAC-AATTGTCTATATACACACATTTTTTTATGAAGGAAAAACATTCCTAAATGCTCTGGGAAA
GGAACAAAACCGATACTCCAAAAATACTATTTTGAAGGTATGTTGGGGCATTATTTTGTTACAGAACGTTAGGAAGGTGT
TTTTTACGGAAATTTGCACATATGTACAAAATTTGTCGATGTTTGTTGCCAATAAAATTCATTATTATTACTATTTTATT
TTACTTTTCATTTTTTTTAAATTACAAGTGTCTGAAGAGTGCCGGGTACTCCCATTTTCTGGAGTGGTTGGTTGGGTATG
CATTTTACGATGTCTGAAGAGTGCCGGGTACTCCTACCATTT-----------------------------------TGT
ATGATTAAGGAGATGCAGCACCCAGCTGGTGCGCATGCGTGGC-----CTGCTTCCCGTGTCGAAACTGCAGACGGTTGT
GCTGACGTAGGCACCATGACGAAGTTGGAGAGCTATTCGTTGGGAATCACTGGTGGGCACGACGAACACGCGTGCGCGGT
-----CGACCATGAAGTTTTGATTCATGCAGAGC-------------ACCACTCGACTACACGATGACACACACTGACAA
TTCTCGATGCATCCGAATCGACCGTGTGATGTTTCGGGCATCC--TTGAAAGTTCCACATCTACAAACAGACGAG-----
---------------GAGCAGTGCCAGTGCCACGCAATTCTCGTTGGGTCCCGGTGCTTCACACCTGCAGTGCGTACGTA
GCCAGTGCGCGTACGTACGTGCGTACAACGGTACAAAGTACAGCTCTCGTGAGCAGGATGGGATGGGTGGTGGAGTCAGT
CGCCGTCCCGTCTTAAAAAAAAGGCAGCGCCTTTTT-TTTCACCGCTCTCTAAATTGTTCTCCAACCGGTGGCCATTCTT
TCTGGGGATCATATAAGCGTGGGC-------GGTTCTTTTCTTCCGAGACACTCACTCGTCCAGACCACCCGCGACAGCG
CCCACCGCTCACCCACCAAGCAAAGGAACACACGCGCAACGACCG-----------------CCCCCGCGCGCGCGGTGG
TG-------ACCATGGACGCGCCGAGCGCCACCGCCAAGCGCAAGCGCTCCTCCC------------CC---GCC-----
----CCGGCCCCCGTCGGCGTCGACGACGTGTCGGACGCCGAGGTCGAGGAGTTCTACGCCATCCTGCGCCGCATGCGCG
ATGCCTCGCGCCGGCTCGTCTCGGGCGGGGTCGCCGCGGCCACGGCCCGCGCC---GCCCCGGCCCCGCGCGCGCCCGCC
TGGTGCCCCAGCTTCTCCTGGGAGGACTTCGCGCCGCCCGCCCCGCC---GCCGCCTCCTCCCTCGCAGCAGCAGCAGCG
GGAGCCCGCCGACGAGCGCGTCGCCGAGAACGGCACGCCGCCGCGGCGGCCGGTCCTCCGCGGCCTCGACCTCAACGCCG
AGCCGGAGCCCGAGGTGCAAGCCTAGAGTAGAGCCGCACGGAT----GACGAGGACGACCCCTGGCCTCGGCGCGCCC--
--CCGCAGCTCGGCGTGCGCACGGACGGACGGACGCGCGCGCGCTGGCCGGCGGCGACACTCTCCATGCTCCTCTGTACC
ACCGCCCGCCGCCCGGCCGGCGC------TT----AGCAAACTGATCACCGTCATCATTTGTTAGTTAC-----CTTACC
AGTGGTAATTCGGTATGTTTAAACCAACATTAGTA---------CTGTAGTACGACTACTTACTACTTAATTTCTTCAGA
GACGTACGTGCACATGGAAGGGTTACTGCTGTACCGTTGCTTCATTATTGGTGCCTGCTTGACTCA--------------
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-------------AATGATTTTCTAGCTTAATCACAGCCCTATTATTGCCAATGCTGAGATCGGTAGTTTCAGTTTTTTT
GGACGCTTGTATCTGAATTTT-----CCTTCCCTTTTGAGACGAATTAGTAGGAGTTTTTTTAATGTTAAATACAATATT
TAGCAAATTATATTACTCTCTAG-------------------GACAATAATATGGATCGGGGG-----------------
-----------------------------AGTAGTTTTTATCCCAAGGCTCAATGCTTTATGTGCAAGTTAATTTGTGGT
CCAATCTTTCTGAATAACCGACAGCGAAGTAAACAATATCCTACAAACTTGCTCTTCTACGTACCTTTTAGAAAAGGAAA
TAGAACACCAGAATTAATTGACGAGGACAAGCTTGGTGGTCATCTTTATTTGTTGATATGTCCCTACTTTTTCTATATAT
TATTTGTGCTTGCTTAATTTGCACGGCTTTAACCACAGCCCTGCTACTGCC-----------------------------
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------------------------------AGGTCTGAGATTGATGTCTTCCTCCTGAAGGAATTATTTACGCGTTCTCC
TTCTCTTTCCACAATAATAAATTTATTTTTCTGCTGAATTAAATAACCAATACTCGGTATAAAATTTTGAATTAGCGCAG
TGTTTTGTCGCCAAAACAAAAACTGGTTAATTTGTGGTTTGAAGAGCGCGGTGAATCGGCGTTTTAAAAAAAAAAGACTA
CTGTGTGTCAATAT
>chr3A_1
GTTTCTACTCGCGAGCTCAAATGCTCCCTCATGAACAGTAAAAATCAAACAAGAGGTGAAAGTAAATAAGTAAATCTATT
TTTT--AATAAACATTGGCAAATTGTCTATATACGCACAATTTTTTATGAAGAAAAAACGTTCCTAAATGCTCCGGGAAA
GGAACAAAAGCGATGCTCCAAAAATAATATTTTGAAGGTATGT-GGAGCATTATTAT-TTTCAGAACATTAGGAAGGT-T
TTTTCACAGAAATTCGCACATAT----------------------------ATAAAATTCATTATTTTTACTATTTTATT
TTACTGTTCG---TTTTAATATTACAAGTGTAAAGAGTAAAGAGTAAACCTAGGTTTGATTTTTTT----------TATG
TATTTTACGGTGTCTGAAGAGTGCCGCGTACTCCTATCTTTTCTTTTCTTTTCTTTGGAATGACTGCTCGTGTCGTGTGT
ATGATTAAGA-------------------TGCGCACGCGTGGG-----TTGCTTCTCATGGCGAAACTGCAGACGAGTGT
GCACACGTAGGCACCATGACGAAGTTGGAGAGCCATTCGTCGGGAACCACTGGTGGGCACGAGGAACAAGCGTGTGTTGT
CGACCCGACCATGAAGTTCTGCCAAGGCCCAGCTATGCCGTTGGCGTACCACCCCACTACACCATGACA-AGACTGACAA
TTCCCAGCGCATCCGAATCGACCGGCTGATGTTTCGGGCATATCTTTGAAAGTTCAACACCTACAAACAAATCGAGCGGC
AATGGCAATGGCAATGAGCAGTGCCAGTGCCAGGCAGTTCTCGCTGGGTCGCGGCGCTTCACACCTGCAGC---------
----------------ACGTACGTACAACGGTACAAGGGACAGGTCTCGTGAGCA-----GGATGGGTGGTGGAGTCGGT
CGCCGTCCCGTCTTGAAAAAAAGGCAGCGCCTTTTTCTA-----GCTCTCTCAATGGTTTTCCGGCCGGTGGCCATTCTT
TCTGGGGATCATATAAGCGTCGGCTTCCGGGGCTTCTTTTCTTCCGAGGCAC----TCGTCCAGACCAGCCGCGGAAGCA
CCCACCGCTCACCCACCAAGCAAAGAAACACACGCGCAAGCGCGCAACGACTGCCT----GCCCCGGGCGCTCGCGGTGG
TG-------ACCATGGACGCGCCGAGCGCCACCGCCAAGCGCAAGCGCTCCTCCC------------CC---GCCGCCGC
CGCGCCGGCCCCCGTCAGCGTGGACGACGTATCCGACGCAGAGGTCGAGGAGTTCTACGCCATCCTGCGCCGCATGCGCG
ACGCCTCGCGCCGGCTCGTCTCCGGTGGGGTCGCCGCGGCCACGGCCCGCGCC---GCCCCGGCCCCGCGCGCGCCGGCC
TGGTGCCCCAGCTTCTCCTGGGAGGACTTCGCGCCGCCCGCCCCGACACCGCCGCCTGCTCCTTCGCAGCAGGAGCAGCT
GCTGCCCGCCGACGAGCGCGTGGCCGAGAACGCGTCCCCGCCGCGGCGGCCCGTCCCCCGCGGCCTGGACCTCAACGCCG
AGCCGGAGCCGGAGGTGCAAGCCTAGAGTAGAGCCGCAACCCGCACGGACGACGAGGACCCCTGGCCTGGGCGCGCCC--
--CCGCA----------CGGACGGACG------CGCGCGCGCGCTGGCCGGCGGCGACACTCTCC-----CCTCTGTACC
ACCACCCGCCGCCCGGCGGCCGGTGCTTTTT----AGCAAACTGATCACCGTCATCATTTGTTAGTTAC-----CTTACC
AATGGTAA------------------------------------------------------------------------
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>chr3D_441
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-----------------------------------------------------------------------------TGT
ATAATTAAGGAGATGGAGCACCCAGCTGGTGCGCATGCGTGGCTTGCTTTGCTTCCCATGTCGAAACTGCAGACGGTTGT
GCAGACGTAGGCACCATGACGAAGTTGGAGAGCTATTCGTCGTG------------------------------------
----CCCACCATGAAGTTCTGCCAAACCGCGGCTATTCCGTTGGCGTACCACCCCACTACACGATGACA-ACACTGACAA
CCCTCAGTGCATCCGAATCGACCGTGTGATGTTTCGCGC--ATCTTTGAAAGTTCAACACCTACAAACAAACGAGCAGCT
G-------TGGCAATGAGCAGTGCCAGTGCCACGCAATTCTCGTTGGGTCGCGGTGCTTCACACCGGCAGT---------
----------------ACGTACGTACAACAGTACAAGGTACAGTTCTCGTGAGCAGGATGGGATGGGTGGTGGAGTCAGT
CGCCGTCCCGTCTTAAAAAAAGGGCAGCGCCTTTTTTTTTCACCGCTCTCT-AATTGTTTTCCAACCGGTGGCCATTCTT
TCTGGGGATCATATAAGCGTGGGCTTCCGGGGGTTCTTTTCTTCCGAGACACTCACCCGTGCAGACCACCCGCGACAGCA
CCCACCGCTCACCCACCAAGCAAAGAAACACACGCGCAACCGCGCAACGACTGCCTGTCCGCCCCGCGCGCTCGCGGTGG
TCAGTGGTCACCATGGACGCGCCGAGCGCCACCGCCAAGCGCAAGCGCTCCTCCTCCGCCGCCGCAGCC---GCC-----
----CCGGCCCCCGTCGGCGTCGACGACGTATCGGACGCCGAGGTCGAGGAGTTCTACGCCATCCTGCGCCGCATGCGCG
ACGCCTCGCGCCGGCTCGTCTCCGGCGGGGTCGCCGCGGCCACGGCCCGCGCC---GCCCCGGCCCCGCGCGCGCCGGCC
TGGTGCCCCAGCTTCTCCTGGGAGGACTTCGCGCCGCCCGCCCCGAC---GCCGCCTCCTCCCTCGCAGCAGCAACAGCG
GGAGCCCGCCGACGAGCGCGTCGCCGAGAACGGCACGCCGCCGCGGCGGCCGGTCCTCCGCGGCCTCGACCTCAACGCCG
AGCCGGAGCCGGAGGTGCAAGCCTAGAGTAGAG-------CCGCACGGACGACGAGGACCCCTGGCCCGGGCGCGCCCGC
CCCCGCAGCTCCGCGTGC--------------ACGCGCGCGCGCTGGCCGGCGGCGACACTCTC-----TCCGCTGTACC
ACCGCCCACCGCCCGGCCGGTGC------TT----AGCGAGCTGATCGCCGTCATCATTTGTTAGTTAC-----CTTACC
AGTGGTAATTCGGTATGTTTAAACCAGCACTACTACTGCTGCTGCTGTAGTACGACTACTTACT--TTAATTTCTTCAGA
AACGTGCGTGCACATGGAAGGGTTACTGCTGTACCGTTGCTTCATTATTCGTGCCTGCTTATAATGGGAGATGCTTAGGG
AAGGTGCTTAGAGAAATAAACCAGACTTTTTTTAGCACCGGTGCCTATTTGTACAGAAGAGACGATTAACTAAGCATCTC
TCCTGTAGAAATAGGCACCGGTGCTACAGAAAAACTCGGTTTATTTTTCTAAGCACCTCTCTAAGCATCTCCCATTGTAC
AAGGCCTAACTGGAATGATTTTCTAGCTTAATCACAGCCCTATTATTGCTAACGCTGAGATCGGTAGTTTCAGTTTTTTT
GGGTGCATGTCTGAGTTCTGAATTTCCCTTCTCTTTCGAGACGAGTTAGTAGGCGTTTTTTTAATG-TAAATACAATAGT
TAACAAATTATACTACTCCCTCGGATCCATATTACAAGGTGCGACAATAATATGGATCCGGGGTACTTATGTGCAGGTTA
ATTTCGACAATTAATATGGATCGGGGAGTAGTAGTTTTTATCAGAAGGCTCAATGTTT--TGTGCAAGTTAATTTGTGGT
CCAATCTTTCTGACTAGTCGACAGCGACCTAAACTATTCCTGTTCTACCTT--------------TTTAAAATAAAATAA
AAGAACACGAAAATACATTGACGAAGACAAGTTTGGTGGTCATCTTTATTTATTGATATGTCCCTCCATTTC---TATAT
TATTTGTGCTTGCTTCATTTGGACGGCTTTAACCACAGCCCTGCTACTGATGGACGAGACTTGCCTGCTCCCTTCCCATG
CTTTCATCCGTGCTTCCGCATACGTGGCTTGATTTGATTGGAAGAAAATAAGGCCCTGCCCCACCCCCTGAAAATCAGGG
AGGAGATGATTAGATTAGAAAATAAAAAGGAAAAAGAACAGCCGTAGGATGAAGTGGGAGCACGGATGGGAGCATGGAGA
GGGAGCAGGCAAGCCGGATCCGCTACTGATAGGTCTGAGATTGGTGTCTTCGTCCTCGAGGAATTATTTACGCGTTCTCC
TTCTCTTTGCACAATA----------------------------------------------------------------
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>chr3B_1084
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----------------------------------------------------------------------CGCGCGCTGG
TG-------ACCATGGACGCGCCGAGCGGCAACGCCAAGCGCAAGCGCTCGTCCG------------CCGAAGCC-----
----CCGGCCCCCGTCGGCGTCGAAGACGTATCCGACACCGAGGTCGAGGAGTTCTACGCCATACTCCGCCGCATGCGGG
ACGCCTCCCGCCGGCTCGTCTCGGGCGGGGTCGCCGCCGCCAGGGCCAGCGCCCCGGCTCCGGCCCCGCGCGCGCCGGCA
TGGTGCCCCAGCTTCTCCTGGGAGGACTTCGCGCCGCCCGCCCCACCACCGCCGCCTCCATC---------------GCA
GCAGCCCGCCGACGAGCGCGTCGCCGAGAACGCCACGCCGCCGCGGCGGCCCGTCCCCCGCGGCCTCGACCTCAACGCCG
AGCCGGAGCCGGAGGTCACCCCCTC--GTAGAG-------GCACGAGGACGACGAC-------------------CCC--
--TCGGA----------CGGACGGACGGACGGACATGGGGGAGCTGGCCGGCGACGATACTCTCC-----TCTCCCCTGT
ACCACCCACCGCCCGGCCGGTGC------TTTTTTAGCAAACTGATCATCTTCATCTGTTATTTTACCTTACCACTTACC
AGTGGTAATTCGGTATGTTTAAACGATCATTACTA---------------------------------------------
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>SNPs
----------S-----------S-----------------------------S----S---S----------S----S--
---SSS-----------S----------------S----S------------S------S-------------S------
---------S----S-----------S----------------S--S--------S-S--S------S----------S-
----S--S------S--------SSSSSSSSSSSSSSSSSSSSSSSSSSSS---------------S-------------
-----S---SSSS----S-S-----------SSSS--SSSSSS-SSS--SSSSS---SS-SSSS-SSSSSSSSSSS----
S--------S----------------S---------S-S-----------------------------------------
---------------S--------------------------------S--------S----------------------
--S-------------------------------------S-----S---------------S-----S-----S-SS--
------------------S--SSSS-SS-S-SSS------------------S-S--------------S----------
-----SS----------------------------------SS------------S---S---------S----------
--------------------------------------------------S--------------------SSSSSSSSS
SSSSSSSSSSSSSSSS----S---------------S------S------------------------------------
---------------------------------------------------S-------S--------------------
-------------------------------------------------------------------------------S
-------------------------S--------------SS-SS--------------------S--------------
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------------------------------S-------------------------------------------------
-S--------------------------------------------------------------------------S---
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----------S---------------------------SS-SS---------S---------------S-----------
-----------S-------S---------------------------------------------SSSS-----------
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--------------------------S-----S-------------------------------SS--------------
S----S-------------------------------------------S----------SSSSSS--------------
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-------------------------------------------------S--S---------------------------
--SS--S---S-SS-SSS-SS----------S----S-------S--------S------------S-----------S-
--S---------S-----S--S------------------------------------S---------------------
------------------------------------------SS-----------S--SS--------------------
-------------S--SS---------SS-----S--SS-SSSSSS--S-SSSSSSSSSSSSSSS---S-S-S--SSS--
S-------S-S---SS--------S------S-------------------S-------------S-S---SSSS-----
---------------S-----S---------------------------SS-----------------------------
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-------------------------------------------S-------S----SS----------------------
--------S-------SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSS
>forward_365
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-------------------------AAGTGTCTGAAGAGTGCCGG-----------------------------------
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>reverse_1926
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-----ACGTGCACATGGAAGGGTTA-------------------------------------------------------
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