>input_sequence_71909
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----------------------------------------------------------------------ATGGAGACCG
CTCCCTCCACTTTGGTGTCCCTTCTTCTCGTCCTCTTCCTCCTCTCCTCA------------CCCGCCGCCATGGCCCGG
CCAGTCGTGGACGTGCTCACCCCCGACGTCCTCCTTGCCTCACCCGCTGCCGCGCCCGCGCCCTCGGCCTTGGCACCAGG
CCCCGACGTGCACGCCTCCGACTACGGCGTGTACATAGTCTTTGTGAGCCGCGCTGGTTACGTCGACTCCGTGGACTACG
ACGTCCGGCTGCTCGCCTCCGTCGTCGGAAGGTTGGTTGTGACTTGTGTGGCAAGCAACATTTCCGCCTCCACAGTGCAC
AGCATCTGTCCTTCTCTTAGGTGATCGATGACATTTTTGTTGTTTCTACAGCACGGAGGAGGCAAAGAAGGCCATGATCT
ACCACTATAGCGGACTCGGGTTCGCGGCAAGGCTCACATGTGATCAAGCAGACCAGTTAGCAAGTGAGCGCGGCTGATTA
CCCACCAAGTTTCTCCCGTTCGATGCATTCCGAAAGCTGGTGTTGGTTTTGCGTGTGGTTGCATGGTTTTCTTTTTCTTT
TTTATGGCTCAGCTTTTTTGCTTGACTTGTGCAGGGAAGGAGGGCATTGCAACCTTCAAGGACAAGACGTACTATGTGGA
CGAAGACGGCCGCTTGCCTCGATTCTTTGAAGAGAGTGTCTGA-------------------------------------
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>chr3D_1_TraesCS3D01G282400
GCCGACAATCTACCAGTAGTGTTGCCCTCCATATGGCTCTTTCAGATTTACATTTCAGAAAACGATCTATCAATTAGACC
ACTTAAAGTGACAAGGTTGTTGCCCTTTCGGGAGGTGGCTCTTCTCGTGACGTCCCTTGGCACAAATAAGCTTCCGTTAT
TTGTTTGGGAAGTATTGCGCTGAAAGGACTTGAGTGCATAGAGAATAAGGATTATGTGTACTTTTTCGTGCCTCGCTTGC
CAACATGGCTAGATCGGAAATTTTGAAGAGTACAAGTCTCTAAAGCCCAGTCCTCCATCTTTCTTTGGTTTGGTTGGTTT
CTCCCATCCAATCCAATGGACCTAGTTCTCTTTATCAATTTGATTAACTCCACCAGTATGTTCCGATCATTGAACTGATA
GCATCACAAAGTGATTTGGTAATATCAAAGCAGGCCATGGCGCATGGCATATAAAGGGATGGCTTATGCTGCCGCCTTTA
TGTT--AATCCTTCTTCCAACCTTTGATGAGAATCTCTAGCTAAAGTTTGGCAGTAG-TTTTTGAGTTTGCTCCTAGCAG
---CAGGAGCGAGTCATCGGCAAAGAGAAGATGGCTTACACTCGGGGCTGC-----------------------------
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----------------------------------------------------------------ATTGCAGATTTTGGTT
TCTTTTAGCCTATCACAATTTTCAGCATTTTGCAACATTGCCGAAGATCCTTGAAAGAGAAGACGTGCGTGTTATATGAG
GCCAAACCTCTTGCGATGATAATAACTCTGAAAGGAGATGCTTTACGCACCCAAAAGACACCTCTGCGACGTTATTAACC
TGAGTTAGAAGTGCGTCCCGTAACTCCCTGAAGTAATAAGCTAAGTTTCAGTTCTTGCATTAACG---AGTAGTTCTAAA
CGCTCGAAGTAAAACCGAGATTTGTAACTGGCTATCA--------CCCTTGGCCATATATAAGCAACGGAAGCTTCACAC
ATCACCTCAACCAGATCGCAAGAGGTGCAAGTGCAAGGCAGAGCCCTTCTCTTCAGCGTCGGACGCAGCGATGGAGACCG
CTCCCTCCACTTTGGTGTCCCTTCTTCTCGTCCTCTTCCTCCTCTCCTCA------------CCCGCCGCCATGGCCCGG
CCAGTCGTGGACGTGCTCACCCCCGACGTCCTCCTTGCCTCACCCGCTGCCGCGCCCGCGCCCTCGGCCTTGGCACCAGG
CCCCGACGTGCACGCCTCCGACTACGGCGTGTACATAGTCTTTGTGAGCCGCGCTGGTTACGTCGACTCCGTGGACTACG
ACGTCCGGCTGCTCGCCTCCGTCGTCGGAAGGTTGGTTGTGACTTGTGTGGCAAGCAACATTTCCGCCTCCACAGTGCAC
AGCATCTGTCCTTCTCTTAGGTGATCGATGACATTTTTGTTGTTTCTACAGCACGGAGGAGGCAAAGAAGGCCATGATCT
ACCACTATAGCGGACTCGGGTTCGCGGCAAGGCTCACATGTGATCAAGCAGACCAGTTAGCAAGTGAGCGCGGCTGATTA
CCCACCAAGTTTCTCCCGTTCGATGCATTCCGAAAGCTGGTGTTGGTTTTGCGTGTGGTTGCATGGTTTTCTTTTTCTTT
TTTATGGCTCAGCTTTTTTGCTTGACTTGTGCAGGGAAGGAGGGCATTGCAACCTTCAAGGACAAGACGTACTATGTGGA
CGAAGACGGCCGCTTGCCTCGATTCTTTGAAGAGAGTGTCTGAAGATCAAATGTTTACCCAACTGCTATCACTACGACCC
AAGCTTTTGGTTACCGAATGAGGCAATTTTACCGAGGGTGACTGATAAATGTGGTTACCACGGTTACCGGGAAATACCGA
GAAATACCGAGAATATTTCGAACGAATTTTATAGTTGAATTTTGAATTCAAATAAATGAATGAACGAACATTCAAACCAA
AGACCTGTCAAAACAGGAACTAGGTTGCTATGAACACGTCAGAATCAACTCTCCTTGCATTAATTAGATCCTAGGCACTT
TACTACAAATCGAGCGTTAAAATTCAAAATTTTCAAAAATAATGGTATTTTTTGCTCGGTATGTGGATTTACCGAGGGGC
ACGGAAATACACGGTAACCATGGGAAATCTTGAAATTTCGACTGGTAACCAAAACCTTGCTACGACCTGAAACATGTCAC
TGTGAAATCCGGGGCGATTTGTTGCACCAACTGTTAAGTTTGTAC----------------------ACGCTTGCAAGTT
GCAAGTTCATAGCAAATCAGTACTTGGAAAATAATGAATAAAGCACCACCGGGTTTGACAACCGGGTGTGACAAATGATT
CAGAAAGTTCTACTCCATGTCCAAGCTGATGATATCTGAGGGCCCTGT-ATACAATTTTATGCAGATTTTCTGTAGCCCA
--------GATTTGCTTGAATCACAGTCAATTTTCCAGCAATTTCCTCATGATTCATGCTCACTCGAGCCTAGAGCTAGT
GAGAGGCGGCCATGGCAGAC-GCGGAGCTATGGTGGGTTGAGGTTGAAGAAAGCGACGAGCCAAATTGACCGCACCCTTA
GAAAATATACCAGGCAACTGCGCTATAGGCAATCCTAAATTTTAATAAGAAGGCCAACTCCCTATGCTTCAGCCACA---
-TTTGACAACAAGAAACACCGTCTATCTTGAATTCTCAATTTTCACAATAAAGTCGCTATAAGAAAACCACAATGAAGAA
TGTAACTCAAGTGTGCCAACTCTATGCAGATAACAGACT
>chr3B_1
GCCGACAATCTACCAGTAGTGTTGCCCTCCATATGGCTCTTTTAGATTTACTTTTCAGAAAACGATCTATCAATTAGATC
ACTC-AAGTGACAAGGTTGATACCCTTTCGGGAGGTGGCTCTTCTAGTGATGTCCCTTGGCACAAATAAGCTTCCATTAT
TTGTTTGGGAAATATTGCGCTGAAAGGACTCGAGTACATAAA-AGTAAGGATTATGTGTAC-TTTTCGTGCCTCGCTTGC
CAACATGGCTAGATTGGAAATTTGGAAGAATACAAGTCTCTAAAGTAA--------------------------------
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-----------------------------------------------CATATAAAGGGATGGCTTATGCTGCTGCCTTTA
TGTTTTAATCCTTTTTCCAGCCTTTGGTGAGAATCTCTTGCTGAAGTTTGGCCGCAG-TTTTTGCGTTTGCTCCTCGCAG
---CAGGAGCGAGTCATCGGCAAAGATTAGATGG--TACACCCGGGGGTGCATTGCAGATAGGGATGAAAATGGAGTGGA
AAGTTTCTGCTTTTCCGGACGAAAAATGGAAACGGAGAGGGAATATGAAAATGGAAATGGAAATTTGCAAAACGGAAACG
GAAATGGATTTTTTATACGGAAACTAAAACAAAAAAGGAACGGTGTTTTCCAGTGGAACATGCGTGAAATGGAACTTTCC
GTTTCCGTAAATATGGAATTTCTGTTTTTATTATAGGTATCCCAACTACCAAAGAACACACAATGACACAATGAGTAGAA
TGAGCAGAATAGATTATTTGAGGGCCAACTTTTACTACCACACATGTACTCAACTAGACCCTATACGGGATTGTCATGTA
CTACTACAATACTATCCTATGTTGCTAGCACAACCATATTATTTTTGTAGTCATGTTAACAATTCCATAAATTTATTTAT
GTTTTATCTATATTTTTCTATGATTCAAGGAGGTTTTAAGTTCTGGTCAACAAACCGTTTTGTTTCCATGTCTGCTCTGT
ATTCACTCTGTGTCTGTTTCTAGTAGTATTTGTTTCCGTATCCGTTTCCGCGGTTTCTGTATTCGTTTTTGCTTCTGCAA
AAGAATATGAAAATAAATATGGTAGCACCCAGTTCCGTCCATTTCCGCGCCATTTTCATCCCTAATTGCAGATTTGGGTT
CCTTTTAGCCTACCACAATTTTCAGCATTTTGCAACATAGCCGAAAATCCTTGAAAGAGAAGATGTGCGTGTTATACGAG
GCCAAACGTCTTGCGATGATAATAACTCTGAAAGGAGATGCTTTATGCACCCAAAAGACACCTCTGCGACGTTATTAACC
TGAGTTAGAAGTGCGTCCCGTAACTCCCTGAAGTAATAAGCTAAGTTTCAGTGCTTTCATTAACG---AGTTGT---AAA
CGCTCAAAGTAAAATCGAGATTTGTAACTGGCTATCAGTCTATCACCCTTGGCCATATATAAGCAACGGAGGCTTCACAC
ATCACCTGAACCAGATCACAAGAGGTGCAAGTGCAAGGCAGAGCCCTTCCCTTCAGCGTCGGACGCAGCGATGGAGACCG
CTCCCTCCACTTTTGTGTCCCTTCTCCTCGTCCTCTTCATCCTCTCCTCACCCGCCGCCGTGCCCGCCGCCATGGCCCGG
CCAGTCGTGGACGTGCTCACCCCCGACGTCCTCCTCGTCTCACCCCCCG------CCACGCCCTCGGCCTTGGCCCCCGG
CCCCGACGTGCACGCCTCCGACTACGACGTGTACATAGTCTTTGTCAGCCGTACTGGTTACATTGACTCCGTGGACTACG
ACGTCCGGCTGCTCGCCTCCGTCATCGGAAGGTTGGTTGTGACTTGTGTGGCAAGCAACATTTCCGCGTCCACAGCGCAT
AGTATCCGTCCTTCTCTTAGATGATCGATGACATTTTTGTTGTTTCTACAGCACGCAGGAGGCAAAGAAGGCCATGATCT
ACCACTATAGCGGTCTCGGGTTCGCGGCGAGGCTCACATGTAATCAAGCGGACCAGTTAGCAAGTGAGCGCGCCTAATTA
TCCGCCAAGTTTCTCCCGTTAGATGCATTCAGAAAGCTGGTGTCAGTTTTGCGTGTGGCTCAGCT---------------
-------------TTTTTTGCTTGACTCGTGCAGGGAAGGAGGGCATTGCAACCTTCAAGGACAAGACGTACTATGTGGA
CAACGGCGGTCGCTTGCCTCGATTCTTTGAAGAGAATGTCTGAAGATCAAATGTTTACCCAACTCCTGCTACCA------
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-----------------------------------------------------------CTACGACCTGAAACATGTCAC
TATGAAGTTCTGGGCGATTTGTTGCACCGACTGTTAAGTTTGTACTGTATGTACCCTGAAAAAAAGAACGCTTGCAAGTT
-------CATAACAAAATAGTACTTGGGAAATAATGAATAAAGCACC-------------ACCGGGTGTGACAAATGATT
CAGAAAGTTCTACTT---GTCTAAGCTGATGATATCTAAGGGCCCTGT-ATACAATTTTATGCAGATTTTCTGTAGCCCA
GATGATCTGATTTGTTTGAATCACAGTCAATTTTTCAGCAATTTCCTC-TGATTCCTGCTCACTCGAGCCTAGAGCGAGT
GAGAGGCGGCGATGGCAGTCGGCGGAGCTATGGTGGGTTGAGGTTGAAGAACGCGACGAGCCAAATTGACCGCACCCTTA
GAAAATATACCAGGCAACTGCGCTATAGGCAATCCTAAATTTTAAGTTAGA---CAACTCCCTATGCTTCAGCCACAATA
ATTTGACAACTAGAAACACAGCCTATCTTGAATTCTCAATTTTCACAATAATGTCGCTATAAGAAAACCACAATAAAGAA
TGTAGCTTAAGTGTGCCAACTCTATGCAGATAACAGACT
>chr3A_1
GCCCACAATCTACCAGTAGCGTTGCCCTCCATATGGCTCTTTCAGATTTACATTTCAGAAAGCGATCTATCAATTAGACC
ACTTAAAGTGACGAGGTTCTTACCCTCTCGGGAGGTGGCTCTTCTAGTGATGTCCCTTGGCACAAATAAACTTACATTAT
TTGTTTGCGAAGATTTGCGCTGAAAGGACTTGAGTACATAGAGAGTAAGAGTTATGTGTACTTTTTCGTGCCTCGCTTGC
CAACATGGCTAGACTGGAAATTTGGAAGAGTACAAGTCTCTAAAGCCCAGTCATCCATCTTTCTTTGGTCTTGTTGGTTT
CTCCAATCCGATCCAATGGACCTTGTTCTCTTTATCAATTTGACTGACTCCACTAGCATCTTCCGATCATTGAACTGATA
GCATCACAAAGTGATTTGGTGAGATCAAAGCAGGCCATGGCCCATGGCATATAAAGGGATGGCTTATGTCGCTGCCTTTA
TGTTTTAATCCTTTTTCCAGCCTCTGATGAGAATCTCTCGCTAAAGTTTAGCCGCAGTTTTTTGCGTTTGCTCCTAGCAG
TAGCAGGAGCAAGCCATCGGCAAAGAGAAGATGGCTTACGCTCGGGGCTGC-----------------------------
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----------------------------------------------------------------ATTGCAGATTTTGGTT
CCTTTCAGCCTACCGCGATTTTCAGGATTTTGCAACATAGCCGAAAATCCTTGAAAGAGGA---GTGCGTGTCATATGAG
GCGTAACCTCTTGCGATGATAATAA------------------------------------CTCTGCGACGTTATTAACC
TGAGTTAGAAGTGCGTCCCGTAACTCCCTGAAGTAATAAGCTAAGTTTCAGTTCTTGCATTAACGAGTAGTTCT---AAG
CGCTCGAAGTAAAACCGAGAGTTGTAACTGG--------CTATCACCCTTGGCCATATATAAGCAACGGAAGCTTCACAC
ATCACCTGAACCAGATAGCAAGTGGTGCAAGTGAAAGGCAGAGCCCTTCTCTTCAGCGTCGGACGCAGCGATGGAGACCG
CTCCCTCCACTTTGGTGTCCCTTCTCGTCGTCCTCTTCCTCCTCTCCTCACCCG------------CCGCCATGGCCCGG
CCAGTCGTGGACGTGCTCACCCCCGACGTCCTCCTCGCCTCACCCGCCG------CCGCGCCCTCGGCCTTGGCCCCCGG
CCCCGACGTGCACGCCTCCGACTACAACGTGTACATAGTCTTTGTCAGCCGCGCTGGTTACGTCGACTCCGTGGACTACG
ACGTCCGGCTGCTCGCCTCCGTCGTCGGAAGGTTGGTTGTGAGTTGTGTGGCAAGCAACATTTCCGCGTCCACAGCGCAC
AGCATCCGTCCTTCTCTTAGGTGATCGATGACATTTTTGATGTTTCTGCAGCACGGAGGAGGCAAAGAAGGCCATGATCT
ACCACTATAGCGGTCTCGGGTTCGCGGCGAGGCTCACATGTGATCAAGCGGACCAGTTAGCAGGTGAGCGCGGCTGATTA
TCCACCAA-TTTCTTCCGTTAGATGCATTCAGAGAGCTGGTGTCGGTTTTGCATT-------------------------
----TGGCTCAGCTTTTTTGCTTGGCTTGTGCAGGGAAGGAGGGCATTGCAACCTTCAAGGACAAGACGTACTATGTGGA
CAACGACGGTCGCTTGCCTCGATTCTTTGAAGAGAATGTCTGAAGATCAAATGTTTACCCAA---CTGCTATCA------
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-----------------------------------------------------------CTACGACCTGAAACATGTCAC
TATGAAGTCCTGGGCGATTTGTTGCACCAACTGTTAAGTTTGTACTGTA----CCCTGAAAAAGAAAACGCTTGCAAGTT
-------CACAGC-AAATAGTACATGGGAAATAATGAATAAAGCACC-------------ACCGGATGTGACAAATGATT
CAGAAAGTTCTACTTCATGTCTAAGCTTATGATATCTGAGGGCCCTGTTATACAATTTTATGCAGATTTTCGGTAGCCCA
GGTGATCTGATTTGTTTGAACCACAGTCAAATTTTCAGCAATTTCCTC-TGATTCATGCTCAGTCGAGCCTAGAGCTAGC
GAGAGGCGGCGATGGCAGACGGCAGAGCTATGGTTGGTTGAGCTTGAAGAAAGCGACGAGCCAAATTGACCGCACCCTTA
GAAAATATACCAGGCAACTGCGCTATAGGCAATCCTAAATTTTAAGTTAGG---CAACTCCCTATGCTTCAGCCACAATA
ATTTGACAACTAGAAACACAGTCTATCTTGAATTCTCAATTTTCACAATAAAGTCGCTATAAGAAAACCACAATAAAAAA
TGTAACTTAAGTGTGCCAACTCTATGCAGATAACAGACT
>SNPs
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---------------------S-----------------------S----S------------------------S----
-----------------------------------S--------S-----------------------------------
--------------S--------S----------------------------S----------------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----------------
---------------------------------------------S----------------------------------
-----------------------------------------------------------------------S--SSS---
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-------S------------------------------------------------------------------------
-------------------------S------------------------------------------------------
-----------------------------------S-----------S-SSSSSS-------------------S--S--
--------------------------S------------------S----------------------------------
-------------------------------------------------------------------S-------S----
------S-------------------------------------------------------------------------
-------------S--------------S--------------------S------------------------------
S-------------------S---------S------------S--------------S-SSSSSSSSSSSSSSSSSSSS
SSSS----------------------------------------------------------------------------
-S-S-----S-------------------------S----------------------------S--SSS--S-SSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS---------------------
-S----S---S---------------------------------------------------------------------
SSSSSSS---------SS---------S-------------------SSSSSSSSSSSSS--------------------
--------------S------S----------------------------------------------------------
--------------S-------------------S-------------S-------------------------------
----------S---------------------------------------------------------------------
---------------------------------------------SSSSS-SSS--------------------------
----------S--------S------------------------------------------------------S-----
-------S-------------------------------
>forward_131
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-------------------------------GAGGTGGCTCTTCTCGTGAC-----------------------------
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>reverse_2181
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--------------------CGATGCATTCCGAAAGCTGG----------------------------------------
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>forward_1996
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--------------------------------------------------------AACATTTCCGCCTCCACAGT----
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>reverse_2934
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-----------------------------------------------------TTTGACAACCGGGTGTGACA-------
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