>input_sequence_79860
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------------------ATGGGCGGCGCCGCGCCGGCGCCAGCGGCAGCGCACGGGGGCATGCGGATGCACTACATGCA
CATGACCTTCTACTGGGGCAAGAACTCGGAGATCCTCTTCCACGGGTGGCCCGGCTCCAGCGGCGGCATGTACGCGCTCG
CGCTCCTCGTCGTCTTTGCGCTCGCCGTGCTCGTGGAGTTCCTCTCCACCTGCCGCTGGCTCGAGAGCCACATCTCCTCC
CGCGACCGGCCGGCGGCGGCGGGGGCGGCGCGCGCCGCCGTGCACGCGCTGCGCGTCGGGATGGCCTACGTCCTCATGCT
CGCGCTCATGTCGTTCAACGTCGGCGTGCTCCTCGTGGCAGTCGCCGGCCACGCGGTGGGGTTCCTGCTCTTCAGGGCCG
GCCTGTTCGGCGGACAGGCGCAGGTGGAGGACGGGGCCAAGGACTACCTGGCGCCGGCGGCGTGCTGCTAG---------
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>chr3B_1_TraesCS3B01G340700
TGATTTCTGATAAAGTATGCATGCTATGTCTAATCCTCCAAAAATATCTTCTATGAGAACTGAATAAAACACGACCAGAC
TCTGCTTGTGGTATCGTATTCACTCCATGAGTTGGTTCTACACACTAAAGAAGAAAATTCACTTTAAAAACATAGCAGCT
ACTTAAGTAACTTAACCATGGGTCTTGGAATTGACCATTTGCATAGGGTATTTCGGTCAATGGCCTGATGAGCACAGCTA
CCGCCGGTCTATCGATAAAAATGCGCATGGAAACGAGCGCCAGAGTAGTAGTTCAGA--------AAAAGATAGACCTTG
AGGAGGGTGGACTTGCCGCAGCCGTTGGGGCCGAGGAGCATCCAGAGCTGCCCCGGCGGGACGCACAGCGAGCAGTCCTT
GAGCACCGGCAGCACCAGCCCCCGCCTCGTCGTCACCGAAAATCCCACCCCGCGGCCCTCGATGGCCGGCGGGGGCGGCG
TAGGGGAGGCCGAGGCGACCACGCGGCGGCGGGTGGAAGGGGGAGCGGTCGGGGTAGCTCGCCCGGCGGCGTAGCTGGGC
GGGTGAGGGTAGCAGCAGAAGGGGGTGGCGCCGCCGGTGAGGCTTTGCGCCATCGTCGGCGAGGACGATAAGGGATGATG
GGCCTGGGCCGGTACACTGGGCGGCT---AGAAGAGGAAACACCAAC------CCCTTCAAGCTTAAACCTAATCGGCCC
ACGATCTGAAAGCCTGTCCACAGAGGAGGGAAAAATGGATCCGCCATCCCTCAC--------------------------
-------AAAGATCCCGTGGGCCGTGGGTGGTTACGATCTGACTGACAGCTGCGGCTGACGACTGTGTACTTCCTTTCGC
TGCCG-GTGTCGTACATGCGTACTGCACAGGCGCCGCGCCGCGCCGGCCCG-CCCGCACATATACACCCACGCGGGCGCG
GACGCAGATGCAACGAACGCACAGAACGCCACCAGATCATCATCGGCGGCCAGCGCGCGATGGACAAGGGAATGGGAGGG
CACGGCATGGG------CATGGGCGGCGCCGCGCCGGCGCCAGCGGCAGCGCACGGGGGCATGCGGATGCACTACATGCA
CATGACCTTCTACTGGGGCAAGAACTCGGAGATCCTCTTCCACGGGTGGCCCGGCTCCAGCGGCGGCATGTACGCGCTCG
CGCTCCTCGTCGTCTTTGCGCTCGCCGTGCTCGTGGAGTTCCTCTCCACCTGCCGCTGGCTCGAGAGCCACATCTCCTCC
CGCGACCGGCCGGCGGCGGCGGGGGCGGCGCGCGCCGCCGTGCACGCGCTGCGCGTCGGGATGGCCTACGTCCTCATGCT
CGCGCTCATGTCGTTCAACGTCGGCGTGCTCCTCGTGGCAGTCGCCGGCCACGCGGTGGGGTTCCTGCTCTTCAGGGCCG
GCCTGTTCGGCGGACAGGCGCAGGTGGAGGACGGGGCCAAGGACTACCTGGCGCCGGCGGCGTGCTGCTAGGTCTTCTTG
TCCGCATCATGCATGGGTTTGGAAAGTTTGGTGGTGTGATCCTGTTAATCTGGGTGATTGCGATCTCACTATTCACAACC
GTTCTCGTTTGGTTGCATCTTGCCTATCGACCGGGATTAACATTTTTGTTATTTGATTTGATTGAGATGCTGGATTTAGT
TGTTGGTGTCGTACTGTGATGGCCAACGTGTATGTTGCCGCTATGTTATCTCATTAATGGCCTTGGTAAATGCTTTGGCT
ACTGGCCATCATCTATAGTCACTCACAAATATAGGGTTGGCTATTATATTTATATTTCTTCTATCTCCTCTCTCTTTACG
TTTATAATACAAGCAAATATGTTATAGGGGGTTGCAATGAAAGAAACAAACTCTCG-CACCCCTA-ATAAGCTTGCCACT
TTTCCTCTTTGTATCATTGTTGATGGTGGTCACTTGTCCTCCTATTTAAGACAGGGGTGATAGGTCTCAAGGCGATGAGT
TTGGTCATCACATTCTAGCATGCATTAATTAATACTTCCTCCATTCCAATGAATAA--CACACATGCTCACCAAAATCCA
ACTGTGATTATAAATTAGTTTT--AAA-ATATTTTCGTGACTTAAAGTATATCATTGGAAACTTCTTTTCAATGTGAATC
AACAATATAATTTTTATCATGCATAATTCATATTTGGTTGGTCTAATTTATGGTTGAAGTCTAGGATGTGTGCACGCCTT
ATTCATCAAAAATAAAGGGAGTAATATAAACATTGCTAAGCAAAACTATAACATCGTATTCGAAAGCAACAATATACACA
ACTTTTTCTTTCCCCTCTCACAAGGCGACTAGGGAAAGTCTTCTTCCCTTCGATCTCCGCCGACGAGTCTATGGATTCGC
CTCCCCTATGCTTGTCGCTCCGACAGCTGGTGGTGGCGAGGGTATTCCTGATGCCTCGGCTTAGATATGTAGGGTTTTAT
TCCTTGCAAGGGCGATGCTCGGACGGATGGCGGCGCTT
>chr3D_1
TGATTTCTGATAAAGTATGCATGCTATGCCTAATCCTCCAAAAATATCTTTTATGAGAACTGAATCAAACACGACCAGAT
TGTGCTTGTGGTATCGTATTCACTCCATGAGTTGGTTCTACACACT-AAGAAGAAAATTCTCTTTAAGAACAGACCAGCT
---------ACTTAACCATGGGTCTTGGAATTGATAATTTGCATGCTGTATTTCGGTCAATGGCCTGGTGAGCACAGCTA
CCGCCGGTCTATCGATAAAAATGCGCGTGGAAACAAGCACCAGAGTAGTAGTTCAGA--------AAAAGATAGACCTTG
AGGAGGGTGGACTTGCCGCAGCCGTTGGGGCCGAGGAGCATCCAGAGCTGCCCCGGCGGGACGCACAGTGAGCAGTCCTT
GAGCACCGGCAGCACCACCCCCCGCCTCGTCGTCACCGAAAATCCCACCCCGCGGCCCTCGATGGCCGGCGGGGACGGCG
GAGGGGACGCCGAGGCGGCCACACGGCGGCGGGTGGAAGGGGGGGCGGTCGGGGTAGCTCGCCCGGCGGCGCAGCAGGGT
GGGCAAGGGTAGCAGCAGAAGGGGACGGCGCCGCCGGTGAGGCTGTGCGCCATCGTCGGCGAGGGCGATAAGAGGTGATG
GGCCTGGGCCGGTACACTGGGCGGCT---AGAAAGAAGATCGCGACCAACCCACCCTTCAAGCT---ACCTAATCGGCCC
ACAATCTGAAAGCCTGTCCACAGAAGA-GGAAAAATGGATCCGCCATCCTTCTTCACAAAGATCCCGTGGGCCGACCCCT
CAAGAAAAAAGATCCCGTGGGCCGTGGGTGGTTACGATCTGACTGACAGCCGCGGCTGACGACTGTGTACTTCCTTTCGC
TGCCCAGTGTCGTACATGCGTACTGCACAGGCGCCGCGCCACGCCGCGCCGCCCCGCACATATACACCCACGCGGGCGCG
GACGCAGATGCAACGAACC---------CCACCAGATCATCATCGGCGGCCAGCGCGCGATGGACATGGGA---GGAGGG
CACGCCATGGGCACGGGCATGGGCGGCGCCGCCCCGGCGGCGGCGGCGGCGCACGGGGGCATGCGGATGCACTACATGCA
CATGACCTTCTACTGGGGCAAGAACTCGGAGATCCTCTTCCACGGGTGGCCCGGCTCGAGCGGCGGCATGTACGCGCTCG
CGCTCCTCGTCGTCTTCGCGCTCGCCGTGCTCGTGGAGTGCCTCTCCTCCTGCCGCTGGCTCGAGTCCCGCCTCTCCTCC
CGCGACCGGCCCGTGGCGGCGGGGGCGGCGCGCGCCGCCGTGCACGCGCTGCGCGTCGGGATGGCGTACGTCCTCATGCT
CGCGCTCATGTCGTTCAACGTCGGCGTGCTCCTCGTGGCAGTCGCCGGCCACGCGGTGGGGTTCCTTCTGTTCAGGGCCG
GCCTGTTCGGCGGACAGGCGCAGGTGGAGGACGGGGCCAAGGACTACCTGGCGCCGGCGGCGTGCTGCTAGGTCTTCTTA
TCCGT---ATGCATGGGTTTGGAAATTTTGGTGGTGTGATCCTGTTAATCTGGGTGATTGCCATCTCACTATTCACAACC
GTTCTTGTTTGGTTACATCTTGAATATCGACCGGGATCAACTTTTTTGTTAT-----TTGATTGAGATGCTGGATTTAGT
TGTTCGTGTAGTACTGT---------------------------------------------------------------
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>chr3A_2
-GATTTCTGATAAAGTACACATACTCTGCCTAGTCCTCCAAAGATATATTTTATGAGAACTGAATCAAACACGACCAGAC
TGTGCTTGTGGTATCGTACTCACTCCATGAGTTGGTTCTACACACTAAAGAAGAAAATTCTCTTTAAGAACAGACCAGCT
---------ACTCAACCATGGGTCTTGGAATTGATCATTTGCATACGGTATTTCGGTCAATTGCCTGATGAGCACAGCTA
CCGCCGGTCTATCGATAAAAATGCGCGTGGAAACAAGCACCAGACTCTTAGTCCTACTAGTTGAGAAAAGATAGACCTTG
AGGAGGGTGGACTTGCCGCAGCCGTTGGGGCCGAGGAGCATCCAGAGCTGCCCCGGCGGGACGCACAGTGAGCAGTCCTT
GAGAACCGGCAGCACCACCCCCCGCCTCGTCGTCACCGAAAATCCCACCCCGCGGCCCTCGATGGCCGGCGGGGGCGACG
GAGGGGAGGCCGAGGCGGCCACACGGCGGCGGGTGGAAGGGGGAGCGGTCGGGGTAGCTCGTCCGGCGGCGCAGCAGGGC
GGGTGAGGGTAGCAGCGGAAGGGGCTGGCGCCGCCGGTGAGGCTGTGCGCCATCGTCGGCGAGGGCGATAAGAGGTGATG
GGCCTGGGCCGGTACACTGGGAGGCTAGAAGAAGACGAGAAACCAAC------CCCTTCAAGCTTAAGCCTAATCGGCCC
ACGATCTGAAAGCCTGTCCACAGAAGA-GGAAAAATGGATCCGCTAT-CCTCAC--------------------------
-------AAAGATCGCGTGGGCCGTGGGTGGTTACGATCTGACTGACAGCTGCGTCTGACGACTGTGTACTTCCTTTGGC
TGCCG-GTGTCGTACATGCGTACTGCACAGGCGCCGCGCCGCGCCGGCCCG-CCCGCACATATACACCCACGCGGGCGCG
GGCGCAGATGCAACGAACGCACAGAACGCCACCAGATCATCATCGGCGTCCAGCGCGCGATGGACATGGGAATGGGAGGG
CACGGCGTGGGCATGGGCGGCGC---CGCCGCCCCGGCGGCGGCGGCGGCGCACGGGGGCATGCAGATGCACTACATGCA
CATGACCTTCTACTGGGGCAAGAACTCGGAGATCCTCTTCCACGGGTGGCCCGGCTCCAGCGGTGGCATGTACGCGCTCG
CGCTCCTCGTCGTCTTCGCGCTCGCCGTGCTCGTGGAGTGCCTCTCCTCCTCCCGCTGGCTCGAGTCCCGCCTCTCCTCC
CGCGACCGGCCCGCGGCAGCGGGGGCGGCGCGCGCCGCCGTGCACGCGCTGCGCGTCGGGATGGCGTACGTCCTCATGCT
CGCGCTCATGTCGTTCAACGTCGGCGTGCTCCTCGTGGCAGTCGCTGGCCACGCGGTGGGGTTCCTGCTGTTCAGGGCCG
GCCTGTTCGGCGGACAGGCGCAGGTGGAGGACGGAGCCAAGGACTACCTCGCGCCGGCGGCGTGCTGCTAGGTCTTCTTA
TCCGCATCATTCATGGGTTTGGAAAGTTTGGTGGTGTGATCCTGTTAATCTGGGTGATTGCGATCTCACCATTCACAACC
GTTCTTGTTTGGTTGCATCTTGCATATCGACCGGGATTAACTTTTTTGTCAT-----TTAATTGAGATGCTGGATTTAGT
TGTTGGTGTGTGC------------------------TCGCTATGTTATCTCATTAATGGCCTTGGTAAATGCTTTGGCT
AGTAGCCATC----------------------------------------------------------------------
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>chr3D_1654
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-------------------------------ATGTCGTCGCTATGTTATCTCATTAATGGTCTTGGTAAATGCTTTGGCT
ACTAGCCATCATCTATAGTCACTCATCAATGTAGGGTTGGCTATGATATTTGTACTTTCTC-ATCTCCTCTCTCTTTACG
TTTATAATACTAGCAAACATGTTCAC--GGGTTGCAATGGAAGAACAAACTCTCGCACACCCCTA-GTAAGCTTGTCACG
TTTCCTCTTTGTATCATCGTCGATGGTGGTCACTTGTCCACCTATTTATGACAAGCGTGATAAGTCTCAAGGCGATGAGC
TTGGTCGTCACATTCTAGCATGCATTAATTAATACTCCCTCCATTCCAATGAATAACGCACACATGCTTACCAAAATCCA
ACTTTGATCGTAAATTAGTTAAAAAAATATATTTTCGTGACTTAAAGTATATCATTGAAAACTTCTTTTCAATGTGAATC
AAAAATATAATTTTTATCATACATAATCCATATTGG---GGTCTAATTTAAGGTTGATGTCTAGGATGCGTGCACGCCTT
ATTCATT-AAAATAAAGGGAGTAATATAAACATTG-TAAGCAAAATTATAACATCATATTGAAAAGCAACAATATACACA
ACTTTTTCTTTCCCCTCTCACAAGGCGACTAGGGAAAGTCTTCTTCCCTTCGATCTCTGCCGGCGAGTCTGTGGATTCGC
CTCCCCTCTGCCTGCCACTCCGGCGGCTGGTGGCGGGGAGGGTATTCCTGGTGCCTTGGCTTAGATATGTATGGTTTTAT
TTCTTGCAAGGACGATGCTCGGACGGATGGCGGCGCTT
>chr3A_1785
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--TATAAGACAA-CAAGCATGTCTGT--GGGTTGCAATGGGAGAAACAAACTCTGCACACCCCTAAGTAAGCTTGCGACT
TTTCCTCTTTGTATCATCGTGGATGGTGGTCACTTGTCCACCTATTTATGACAAGCGTGATAAGTCTCAAGGCGATGAGT
TTGATCATCACATTCTAGCATGCATTAATTAATACTCCCTCCATTTCAATGAATAACGCACACATGATTATCCAAATCCA
ACTTTCATTGTAAATTAGTTTAAAAAA-ATATTTCCGTGACTTGAAGTATATCATTGAAAACTTCTTTTCAATGTGAATC
AACAATATAATTTTTATCATACATAATCCATATTGG---GGTCTAATTTATGGTTGACGTCTAGGATGCGTGCACGCCTT
ATTGATT-AAACTAAAAGGAGTAATATAAACATTGCTAAGAAAAATTATAACATCATATTGAAAAGCAACAATATACACA
ACTTTTTCTTTCCCCTCTCACAAGGTGACCAGGGAAAGTCTTCTTCCCTTCGATCTCCGCCGGCGAGTCTATGGATTCGC
CTCCCCTATGCCTGCCGCTCCGGCGGCTCGTGGCGGGGATGGTATTCCTGGTGCCTCGGCTTAGATATGTATGGTTTTAT
TTCTTGCAAGGACGATGCTCGGACGGATGACGGCGCTT
>SNPs
----------------------------S---------------------S--------------S--------------
-S----------------------------------------------------------S------S----S-S-----
SSSSSSSSS-------------------------S----------S----------------------------------
--------------------------S-------S---S-----------------------------------------
--------------------------------------------------------------------S-----------
-----------------S--------------------------------------------------------------
S----------------S----S------------------------------------------------S---S----
------------------------S-------------------S-------------------S-------S-S-----
-----------------------------------S--------------------------------------------
------------------------S--S----------------------------------------------------
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------------------------------------------------------------------S-------------
--------------------------------S------S-S-----S--------------------------------
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----------------S----------------------S-------S-----------------SS--S-S--------
-----------S-----------------------------------------------------S--------------
---------------------------------------------------------------------S----------
-------------------------------------------------------------------------------S
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-----S-----------------S-----------------S----------SSSSS-----------------------
---------S-------SSSSSSSSSSSSSS----S-S------------------------------------------
---S---------------------SS---S-------------S------S--S--SS--S------------------
-----------------S-----SSSSS-----------S--------------SS----------S-------------
-----------------S--S------------------S--------S----S-S------S-----------------
------------------------------------S-------------------------------S-----------
---S-----S-----------S-----------------------------------S----------------------
--------------------S------S------S-SSS------------------S----------S-----------
------SS-------------------------------------S---------S----SS------------------
--------------------------------------------------------------S-----------------
-----------S--S-------S-S--------S--S-------------S--------------------S--------
-S---------S--------------------------
>forward_676
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-----------------CACTGGGCGGCTAGAAGAG--------------------------------------------
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>reverse_2218
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---------------------------------------------------------AGTCTAGGATGTGTGCACGC---
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