>input_sequence_74152
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-ATGCAACCACAAGGTCGTGCCCACATCCTCACCCGAGCCTGCATTGCTCTCACGCTCCTACTAACCACGGTAAACACCG
CGTCGGGCCGCCGT---------------CCCCCGCCCCCTACCCATGGCTCCGGCCAGACCATAACGCTCTACACCATC
GGAGCCGCACCACCAAATGCCGGCGGCACCCCTTCCTCGAAACACCCCGCCTTCACCAGCCAAGGCCCGATCGGCCACCC
CGGCAGCTGGCTGCGCACCTTGACGCTGCCTGGAGCGCTTCGGCCTGGCACTGTGACCGTGATTGACGAGCAGTTCCACG
GCAAGAGAGAGTTTGGGCTGCCCTTGGCTGGGAAGCTGCAGGGCGTTCTTGTCACCAGCTTGGATGATAACAGCAGCCGT
ATGGTGGCAGTGAAGGCCCTGTTCACCGGCGCTGGCGCAGAAGACAGCATCAGGTTCTTCGGAGTCCATCGTGATGGCCA
GGAGGAGTCTCATGTCGCGGTGGTCGGAGGGACGGGAAGGTACGACGGCACCACCGGTTTCGCTGTTATCAGAGCAGCGG
ATGTACCTGAAACAAGCGGAAATGTCAGCTTCAGCAGGATTCTTAGTTTCAGTGTGCACCTCAA---------GTGA---
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>chr3B_1_TraesCS3B01G388200
AGGATGTTGGACAAGGGGCGAACATTTGGTGACTCCGGTTGGATGCCCTCCGCTCGGTCGGTTGTTTGTGGACACGTCGG
ATGTATCCGTGGATAT-----------CAATAGGTGACCCGCGTTGGAGTTGCCCTTATAGTTTTT--------------
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-------------------GGG-GAAGGGGTAGAAGTAGCTTAACTCCTCAAACTGATTTTTAGG-GAGTTATAAGCCTT
TTTGGAGCGGCCAGAAATGCTCTAATCCTACGGTACTTTTCAATCGCCAATACGCTCTTGAGCTCACATGACCAACAACC
TGAAGAGGTTGTCACGTTGATTTCATCTTAACCTGAGGAATGTTCCAGGAAATTTTAGTTCTTCCATGTGCAACTAAGAT
TTCATCTTAACCAGAAGAGGTTATCTGATACTACATCCAAGGTCAGAGATCGTCGAAGTGGGGGACAGGGTCTGGTCATG
AATTAGCATGTGCAGCAAAGTACATGA------TAATTCTTACACGATCTAATCAACAAACAGTAATGTGAAACGCAAAA
GACCAGAATCAAATTGTTCTCTAGGGACTAATGGAAGACCAGAGTGCAGCAACTACGAAAAAAAATGCCCCATGCGCTCT
CCCCAAGAAGTCTTGGCGCCTGCTTACCAAGTCGTGACAGGGGAGGACAGTCGAATGACCTGAGCCGGCAGCAGAGAATT
CTTGGAGACATTGTTGCGCAACAGGTGTAGTTTAGGTGGTTTAACCTTTTCCTTGTGTCCAAATACAGAACACCAACTTC
TTCAAGATCAGCCTGATAGAGGCCATGGTTCCAGAATATAAGCTCTTTTATGAACTTTTATGAACAAGATCAGGCTAGGA
GCCTAGGAGGATGGTA----------------------------------------TCTTACTGAAGGGAGTTGCTGGCT
GACACGAGCCAAATGGAGCTGCTGGTTCGTTGCAGAGCCAAAT-----------------------------GGAGCAGT
TTGGCTTTGTGAACCAACTCCACTCTGCGCTACTTAAGCAAATCACACGGCAGATGACCGTAACCTCACAACCGAGCCAA
GATGCAACCACAAGGTCGTGCCCACATCCTCACCCGAGCCTGCATTGCTCTCACGCTCCTACTAACCACGGTAAACACCG
CGTCGGGCCGCCGT---------------CCCCCGCCCCCTACCCATGGCTCCGGCCAGACCATAACGCTCTACACCATC
GGAGCCGCACCACCAAATGCCGGCGGCACCCCTTCCTCGAAACACCCCGCCTTCACCAGCCAAGGCCCGATCGGCCACCC
CGGCAGCTGGCTGCGCACCTTGACGCTGCCTGGAGCGCTTCGGCCTGGCACTGTGACCGTGATTGACGAGCAGTTCCACG
GCAAGAGAGAGTTTGGGCTGCCCTTGGCTGGGAAGCTGCAGGGCGTTCTTGTCACCAGCTTGGATGATAACAGCAGCCGT
ATGGTGGCAGTGAAGGCCCTGTTCACCGGCGCTGGCGCAGAAGACAGCATCAGGTTCTTCGGAGTCCATCGTGATGGCCA
GGAGGAGTCTCATGTCGCGGTGGTCGGAGGGACGGGAAGGTACGACGGCACCACCGGTTTCGCTGTTATCAGAGCAGCGG
ATGTACCTGAAACAAGCGGAAATGTCAGCTTCAGCAGGATTCTTAGTTTCAGTGTGCACCTCAA---------GTGAAGG
CCGTGAAGCCTCACATACCATTCTGCAAA-TCAACTTCTCTGCAAGAAGCTTCAGAGTTTTCGACAAGTGAAACTTGTAG
ACCGACAGTTCAAAACACACCGAAGGAACGAGACTTAACTGAACAGGATATATATGCAATCTCATCCCATTACATTTCAC
TTATATTAAGTATTCATTTTACAGTTAGGAGTTAACTGGAAGTCCAAAACTGAACCCAATAGCTCCTGAAATACAACCTC
TTCACCTATCTTTCAATTCACTTCTATAGTTCCACATGTGGACAAAAAACCATTGGTTACTTCTGTCCAGTCTCACCAAG
ACGAAAACAAATTTAAATGATTCTACAAGGTCGTTATACAAACACAGAATTATACTGAATGGATCCAGTTGGTGAAGCAC
GTTTGCCTATATTCGCAGCATTCAGAACCGAATAGATTCATCTCAGTGTTGCCTTGGTTACTCATCCAAGATCCTTTTGC
GGAAATCTGTCACCATCAAGGGAAGGCCTTCCTTCAGAGATACCTTTGGCTCCCAACCTAGCAGTTGCTTGGCCTTGGTA
ATATCGGGCTTTCTCATATGGGGATCATCAGCAGTGTTGGGCTTGAATTCAATTGTCGACATTGGGTCAATTGTTTCCTT
CACAACCTGGAAAAAGGCAGGATATTCATTTACTACGAACCATTTTAGATTAAAAAA-AAGTATCTAACAACACTCTTGT
GCAGACCTCTGCAAGTTCCAACATGGTGAACTCTCCTGGGTTTCCCAGATTGAAAGGGCCAATATGTTCACTCTCCATCA
GAGCCATCAATCCAGCAACCTAAAAGACATGGATGGAAATATCATGACAAACTTA-GACTTGATAAGAGAAATCAAAAGG
TCTGTGTAGCCATTGATCTGCATTCATCTAATAAAGATAAGCAAGCAGGTGATATGATTAAAAAACATTTGATATTTGTA
TGCAAAGGGGAAAAGTAGATGCAACAGACAAAAATCCTGA
>chr3D_1
AGGATGCTGGACAAGGGGCGAACATTTGGTGACTCCAGTTGGATGCCCTCCGCTCGGTCGGTTGTTTGTGGACACGTCGG
ATGTATCCGTGGATATTTGATGATGTTCAATAGGTGACCCGCGTTGGAGTTGCCCTTATAGATTTCGAAAAGTGTAACGC
CCACACGTGTGGGCGTTAGCCAACTCACCCACACGCCTCCATCACCGTCCAGTAACTTCTGCACGAATCTTGGCACGAAT
TAGCTGATTTTGTATGCCACGTAGGACAACTCGCGTGTGTGGTGTGTGAGAGAGGTCGCCCACACATCTGTTTTACCACA
CGGAGGGGCCGGTGTGTGGGCGTTTAGCAGTTCGCCCACACACCAGTTTTCAGTCACGTACAAGGGCTGGTGTGTGGGCG
TTTGCCATCTCGCCCACACGCCCGCCTCCTCTCCCACACCCAAGCTGTCAGTTGCCATGCGTTTTGCAGTGTACATGGCA
ACTGCCCTAGTGTGATTCCAAGCAGATGGCAACTCTTTTTTTTTACCCGAACATGTCAGTTGCCTTATGTTTTGTATGGT
ACATGGCAAACTGCCCTAGCGTGCACGTAAGCAGATGGCAACTCTTTCTTTTTACATGGCAACTGCCCTAGCGTGCTTGT
GAGCACATGGCAACTCTCTCTTTTACCCGAACATGTTTTTTTTGCCATGCCTTTTTTTGTAGTGCTACATGGGCAACTGC
CTAGTGTTAGTAGGTGGCAACTCCTAAAGTTTTGAAATCATGGCAACTGCAGTAGACCAAACCACACATGGCAACAGCTG
TAGTTGTCCAGAAAATGGCAATCTGGAACTTTGACCTGAAATGGCAACTGCAATTGAGCAAACATGGCAACTGTAGTTGT
TCGACATGGCAACCGTAGTTCAGCGACATGGCAACTGCACTTAAACAAACATGGACGAGGGTCCGGCCCATGGCAACTGC
GGGCGCGCGGTAAAGTGTCATGTGAGACGTGCGGTACCACGAGGTACGAGGCCTGACGTACCGGGCGTGTGGGCGTTATC
TATTTCGCGCACACGCACGCGTGTAAGAAGGACCGGAAGGGAAAAAACAGGCGTGTGGGCGCTAGTTATTTTGCCCACAC
ACAGGCGTGTGGGCTGGTCCTCTTAGGCACCACACAGAATGTGTGGGTAGGTCCCTTAACGCTCACACGTGTAGCAGTTA
TCGGCGTCCATAGATTTTGGGG-GAAGGGGTAGAAGTAGCTTAACTCCTCAAACTGATTTTTTAGGTAG--ATAAGCCTT
GTTGGAGCAGCCAGAAATGCTCTAATCCGACAGTA---------------------CTTGAGCTCACATGACCAACAACC
TGAAGAGGTTGTCACGTTGATTTCATCTTAACCTGAGGAATGATCCAGGAAATTCTAGTTCTTCCACGAAGGGATCAC--
---------------------TAT-TGATACTACATCTAAGGTCACAGATCGTCAAAGTGGGCAACAGGATCTAGTCATG
AATTAGCATGTGCAACTATGTACTCCATGATACTAATACTTACACAATCTAATCAACAAACAGTAATGTGAAAAGTAAAA
GACCAGAATCAAATTATTCTCTAGGGACTAATGGAAGACCAGAGTGCAGCAACT-CGGAAAATAATGCCCCACGCACTCT
CCCGAAGAAGTCTTGGCGCCTGCTTACCAAGTCGTGGCAGGGGAGGACAGTCGAATGACCTGAGCCGACAGCAGAGAATT
CTTGGAGACATTGTTGCGCAGCAGGTGTAATTTAGGTGATTTACCTTTTTCATGCGC-CCAAATACAGAACACCAACTTC
TTCAAGATCAGCCTGACAGATGCTCAGAATAG----------------------CTTGTATGAATAAGATCAGGCTAGGA
AGATATTACTCCCTCTCATCTGATCCATATTACTTGTCCCTTAAACGGAGACGTATTCTTATTGAACGGAGTTGCTGGCT
GTCGTGAACCAAATGGAGTTGATGGCTCGCTGCAGAGCCAAAC-----------------------------GGAGCAGC
TTGGCTTCCTGAACCAACTCCACTCTGCGCTACTTAAGCAAATCACACGGCAGATGCCCGTAACCTCACGACCGAGCCAA
GATGCAACCACAAGGTCGTGCCCACATCCTTACCCGAGCCTGCATTGCTCTCACGCTCCTACTAATCACGGTAAACACCG
CGTCGGGCCGCCGCCCGGCAGGCCACAGCCCCCCGCCCACTCCCCACGGCTCCGGCCAGACCATAACGCTCTACACCAAC
GGAGGCGCGCCACCAAATGCCGGCGGCACCCCTTCCTCGAAACACCCTGCCTTCACCAGCCAAGGCCCGATCGGCCACCC
CGGCAGCTGGCTGCGCGCCTTGACGCGGCCTGGGGCGCTCCGCCCCGGCACGGTGACCGTCGTCGATGAGCAATTCCACG
GCAAGAGAGAGTTTGGGCTGCCCTTGGCTGGGAAGCTGCAGGGCGTTCTTGTCACCAGCTTGGATGATAACAGCAGCCGT
ATGGTGGCAGTGAAGGCCCTGTTCACCGGCGCTGGCACGCAGGATAGCATCAGGTTCTTCGGAGTCCACCGTGATGGCCA
GGAGGAGTGTCATGTCGCGGTGGTCGGAGGGACGGGAAGGTACGACGGCACCACCGGTTTCGCTGTTATCAGAGCAGCGG
ATGTACCTGAAACAAGCGGAAATGTCAGCTTCAGCAGGATTCTTAGTTTCAGTGTGCACCTCAA---------GTGAAGG
CTGTGAAGTCTCACATACCATTCTGC-AA-TCAACTTCTCTGCAAGAAGATTCAGAGTTTTCAACAAGTGAAACTTGTAC
ATTGACAGTTCGACACACACCGAAGGAACGAGACTTAACTGAACAGGATATATATGCAATCTCATCCCATTACATTTCAC
TTATATCAAGTATTCATTTTACAGTTAGGAGTTAACTGAAAGTCCAAAACTGAACCCAATAGCTCCTGAAATACAACCTC
TTCACCTATCTTTCACTTCACTTCTATAGTTCCACATGTGGACAAAAAACCATTGGTTACTTCTGTCCAGTCTCACCAAG
ACGAAAACAAATTTAAATGATTCTACAAGGTCGTTATACAAACACAGAATTGTACTGGATGGATCCAGTTGGTGAAGCAC
ATTTGCCTATATTCGCAGCATTCAGAACCAAATAGATTCATCTCAGTGTTGCCTTGATTACTCATCCAAGATCCTTTTGC
GGAAATCTGTCACCATCAAGGGAAGGCCTTCCTTCAGAGATACCTTTGGCTCCCAACCTAGCAGTTGCTTGGCCTTGGTA
ATATCGGGCTTTCTCATATGGGGATCATCAGCTGTGTTGGGCTTGAATTCAATTGTCGACATTGGGTCAATTGTTTCCTT
CACAACCTGGAAAAAGGCAGGATATTCATTTACTACGAACCATTTTAGATTAAAA-----GTATCTAAAAACACTCTTGT
ACAGACCTCTGCAAGTTCCAACATGGTGAACTCTCCTGGGTTTCCCAGATTGAAAGGGCCAATATGTTCACTCTCCATCA
GAGCCATCAATCCAGCAACCTATTAGACATGGATGGAAATATCATGACAAACTTA-GACTTGATAAGAGAAATCAAAAGG
TCTGTATAGCCATTGATCTGCACTCATCTAATAAAGATAAGCAAGCAGGTGATATGATTAAAAAACATTTGATATTTGTA
TGCAAAGGGGAAAAGTAGATGCAACAGACAAAAATACTGA
>chr3A_1
AGGATGTTGGACAAGAGGCGAACATTTGGTGACTCCGGTTGGACGCCCTCCGCTCGGTCAGTTGTCTGTGAACACGTCAA
ATGTATCCGTGGATATTTGATGATGTTCGATAGGTGACCTGCGTTGGAGTTGCCCTTATAGATTTT--------------
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-------------------GGGGGAAGGGCAAGAAGTAGCTTAACTCCTCAAACTGATTTTTTAGTGAGTTATAAGCCTT
GTTGGAGTGGACAGAAATGCTCTAATCCTACATTACTTTTCAATCGCCAATACGCTCTTGAGCTCACATGACCAACAACC
-----------------TGATTTCATCTTAACCTGAGGAATGATCCAGGAAATTCTAATTCTTCCACGAAGGAATCAC--
---------------------TATCTGATACTACATCCAAGGTCACAGATCGTCAAAGTGGGGGACAGCGTCTGGTCATG
AATTAGCATCCATGGTCTTT------------------------------------------------------------
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---GTGAACCAAATGGGGCTGCTGGTTCGTTGCAGAGCCAAATGGAGCTGCTGGTTCGTTGCAGAGCCAAATGGAGCAGT
TTGCCTTTGTGAACCAACTCCGCACTGCGCTACATAAGCAAATCACACAGGAAACGCCCGTAACCTCACGACTGAG-CAA
GATGCAACCACAAGATCGTGCCCACATCCTCACCGGAGCCTGCATTGCTCTCACGCTCCTACTAAGCACTGTAAACACGG
CGTCCAGCCGCCGTCCGGCAGGCCACAGCCCCCCGCCCCCTCCCCACGGCTCCGGCCAGACCATAACGCTCTACACCAAT
GGAGCTGCACCACCAAACGCCGGCGGCACCCCTTCCTCGAAACACCCGGCCTTCACCAGCCAAGGCCCGATCGGCCACCC
CGGCAGCTGGCTACGCACCTTGACGCGGCCTGGGGCGCTCCGCCCCGGCACGGTGACCGTCGTCGACGAGCAGTTCCATG
GAAAGAGAGAGTTTGGGCTGCCCTTGGCTGGGAAGCTGCAGGGCGTTCTTGTCACCAGCTTGGATGATAACAGCAACCAT
ATAGTTGCAGTGAAGGCCCTGTTCACCGGCGATGGCGCGGAAGACAGCATCAGGTTCTTCGGAATCCATCACAACGGTCA
GGAGGAGTCCCATGTCGCGGTGGTCGGAGGGACGGGGAGGTATGACAGCGCCACCGGTTTCGCTGTTATTAGAGCAGCAG
ATGTACCTGAAACAAGGGGAAATGACAGCTTCAGCAGGAATCTCAGTTTCAGTGTGCTCCTCAAGTGAAGGCTGTGAAGG
CTGTGAAGTCTCACATACCATTCTGC-AAATCAACTTCTCCGCAAGAAGCTTCAGAGTTTTCGACAAGTGAAACTTGTAG
ATTGACAGTTCAACACACACCGAAGGAACAAGACTTAACTGAACAGGATATATATGCAATCTCATCCCATTACATTTCAC
TCATATCAAGTATTCATTTTACAGTTAGGAGTTAACTGGAAGTCCAAAACTGAACCCAATAGCTCCTGAAATACAATCTC
TTCACCTATCTTTCACTGCACTTCTATAGTTCCACATGTGGACAAAAAACCATTGGTTACTTCTGTCCAGTCTCACCAAG
ACGAAAACAAATTTAAATGATTCTACAAGGTCGTTATACAAACACAGAATTGTACTGAACGGATCCAGTTGGTGAAGCGC
GTTTGCCTATATTCGCAGCATTCAGAACCAAATAGATTCATCTCACTGTTGCCTTGATTACTCATCCAAGATCCTTTTGC
GGAAATCTGTCACCATCAAGGGAAGGCCTTCCTTCAGAGATACCTTTGGCTCCCAACCTAGCAGTTGCTTGGCCTTGGTA
ATATCGGGCTTTCTCATATGGGGATCATCGGCTGTGTTGGGCTTGAATTCAATTGTCGACATTGGGTCAATTGTTCCCTT
CACAACCTGGAAAAAGGCAGGATATTCATTTACTACGAACCATTTTAGATTAAAAAAAAAGTATCTAAAAACACTCTTGT
ACAGACCTCTGCAAGTTCCAACATGGTGAACTCTCCTGGGTTTCCCAGATTGAAAGGGCCAATATGTTCACTCTCCATCA
GAGCCATCAATCCAGCAACCTAAAAGACATGGATGGAAATATCATGACAAACTTAAGACTTGATAAGAGAAATCAAAAGG
TCTGTGTAGCCATTGATCTGCATTCATCTAATAAAGATAAGCAAGCAGGTGATATGATGAAAAAACATTTGATATTTGTA
TGCAAAGGGGAAAAATAGATGCAACAGACAAAAATACTGA
>SNPs
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--------------------------------------------------------------SS----------------
S------------------------------S------------------------------------------------
------------------------------------------S-----------S-----------S-SSSS-S-S-SSS
SSSSSSSSSSSSSSSSSSSSS------------------------S--------S-------------------------
----------------S-S----SSS-----------S-------S---------------------------S-S----
---------------S--------------------------------------S--S----S---------S--S----
---S--------------------------------S------------------------------S------------
--------------------S--------S--------S----S-S-----S-SSSSS----------------------
----------------S---S--SSS-SS-SSSSSSSSSSSSSSSSSSSSSSSS---S------S---------------
SSS--SS-SSSSSSSS---------------------------------------------S----S-------------
-S-SS--S------------------------------------------------------------------------
--------------------------------------------------------S------------S----------
-----------------------------------------------------------------S--------------
-----------------------------------------S----S-------------------------------S-
-----------------------------------------------S--------------------------------
--------------------------S------S-----S--S--S-----S--------SS-S----------------
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--------------------------------------S-----------------------------------------
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-S------S-----------------S-----------------------------------------------------
-SS----------S------------------------------------------------------------------
------S-------------------------------------------------------------------------
---------------S----------------------------------------------------------------
---------------------------------------------------S----------------------------
-----------------------------S--------------------------S-----------------------
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--------------------------------S-----------------------------------------------
--------------------------------------------------------------------S-----------
S-------------------------------------------------------------------------------
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-----------------------------------S----
>forward_1658
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--------------------------------------CCAGAGTGCAGCAACTACGA----------------------
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>reverse_2894
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-------------AACACACCGAAGGAACGAGA-----------------------------------------------
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