>input_sequence_86889
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---------------------------------------------------------ATGGCGGACTGGGGGCCGGTGGT
GGTCGCGACGGTGCTGTTCGTGCTGCTGACGCCGGGGCTGCTGTTCCAGCTGCCGGCGCAGGGCCGGATCGTGGCCTTCG
GCAGCATGCACACCGGCGGCCTCGCCATCCTCGTCCACGCCGTCATCTACTTCGCCCTCATCACCATCTTCCTCATCGCC
ATCGGCGTCCACATCTACGCCGGCTAG-----------------------------------------------------
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>chr4B_1_TraesCS4B01G277200
TCAATGGATAGGTGGGCAGTTTTTCTGATGTGCATGGTTGCTAGTGCTAGCGAAAAGAAACAACATGAGTAGCCACGGCA
TGAGGTAACTAAAACAGTTTTGCTAAATGCCAGATGGTGTCGGTCCTTTCTTTG-CGGAACAAATGGTGTCGGTATGGTA
ACATGTCCCAGTCATTCCTTTCGTGCTTCTGTTGGGAAAGATATTCTTTCCTCCATTGTGTAGAGAAACGGGGAGTATAA
-------------------TTTTTGCTCCTTTCCGCACGGAAATGTCCTGCTTTCTTCACATCCCCTGCAAAAGCACCGC
ACAAAGAAAAGAAAA-----GAAATGAAATGACTTCCGCTCGCTCATTGTATTCATCGTCAGACCC--CTTCTTATTGTG
ATCCTTTTCTTTATCGACCTCCCTGCTTGTTG-CCAAGCA--------------GAGAACGTGCAGGAGCGACAGATTTT
GGATTTCACCGACTCGACGGCA-----CACGAGAACTAGTGGACAGTAATGGCAGA---TACTTCTACTACCACCATCAC
GTGAATCTATAGCCTTGTTTGCGCGACGTCCGAGGTCAGATCGTCCAGAAACAAAATAGTGGAGTG-------CTAGCGC
GTCGATCCAAGCCGACGACGACTGGCGGATTTGGATTCTACTCACCGGAGATGTTCACGTGGCGGTGCGCACCGCCGTTT
CCCCCCGCAAGAGAT--CGAGAGAGAGAGCCTTTCCACCTACTGCATACGCACACACGGCGTGTATGACACTACGGGAAG
GAACCCGCGCGGCTCACTGGAGCAGGTTCGCGTGCCGCTGTGTGCCTCCGTGAGCGCTCCGCGTGGCCCGCCGACCGTTT
ACTCCTTTC------------CCCAAGCCGAAGCCTGCCTATTAAACCCAA-CGTTACTCTTCCTCTGCTTCCCTGCCAG
TTCATTACTCTTCTTCCTCCTCGCTCCCAGTTTTGAATCGAGAGAGAG------------GTGTTGGGTGCAGCTAG---
CTTGGAGCAAGCAAGCGGATCCAGGAGGAGCCGACCGGAGTGC----------GGAGATGGCGGACTGGGGGCCGGTGGT
GGTCGCGACGGTGCTGTTCGTGCTGCTGACGCCGGGGCTGCTGTTCCAGCTGCCGGCGCAGGGCCGGATCGTGGCCTTCG
GCAGCATGCACACCGGCGGCCTCGCCATCCTCGTCCACGCCGTCATCTACTTCGCCCTCATCACCATCTTCCTCATCGCC
ATCGGCGTCCACATCTACGCCGGCTAGACCCCC--C--ACTCTTCTTCGCCGCACAGCGCTTCTCGGCTCTGCCGCGCGT
TATTAAGCTTTGTTGCCTGCCGAGCTTGTCTGTCCCTTACTACTATTATTGTTGATGTACTGTGTGTGTAGTAGCTTCTG
TTGTCTTC-----------TTTGGTTGATCGGAGAAACAATCGGAAGCTAGTAGTATATGGTTTGGTGGTC----GGCTG
TGGGGTTTCGTTTGAGATGGCTCTA-------------------TCTCTGGGATGAAATTTTATCCGGAGAAGAATGGAT
GTTGTTGTTGCTCCTGTTGCCGTTGTGAATCCTCTCTTGAATTAACCTTGGACGTGTCAATTTATTTATTTCTCGCTTGA
TATCCAACCTTTTGATTGTTTTCTTCAGCTATCTGTTGCTTCCGTAGAAAAAAGCTATGTGTTCCGAGTTATCTGAATGA
CACCACCTCACTCAAAATCAAAAGACACGGAACAAAAACCATTCCAACTCTGTTGCGTGCACTGTGCAGTCGTA------
---------------------------TAGCAGCAAATGTTAATCCATCAGAATCTGCCCGTAGCTTGCACTAGTAGGTT
TTGTCACCCCCTTTTGCGCACTTCGCGGATCGTTTCATTTGGGTCGGTCA--------TGCTCG-CCCCGGCTCCCCTGC
CGCATAAGCTGCGCTGGACCAA-----------------------------------ATCGGTTCATGTGCAGATGTGCT
CCCACCGACCGGATCCCCTTTGCTTCCATCGCCCGTCAGCACCTTGAGCGCAT---------------------------
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--------AGATGCGATTAAGCAGCTTCGAATCGGATTCTACTCCGCTGCAAAGTCACTTCGAACCGACACACGCTAACA
GTTCAAACCGGACTCCTACTA-AAAAGTCAATTCGAACCGCACAGACTATTCAGGTTAACCTGACTGCACATGTACATAT
ACTATGCATACGAGAAAACGAATACAAGACGATGATCGATACGATGTCGCAGCCGGGCGAACGTGCCACCGAAAACACGA
CTCTGGACGACGACGTGGTAACGGAGATCCTGCTGAGGCTGCCGTCCGCCTCCGTGTT
>chr4A_23
----------------------TTCCGATGTGCATGGTTGCTAGTGCTACCCAAAAAAAACAACATGAGTAGCCACGGCA
TGAGGTAACTAAAA------------ATGCCAGATGGTGTCGGTCCTTTCTTTG-CGGAACAAATGGTGTCGGTATGGTA
ACATGTCCCAGTCATTCCTTTCGTGCTTCTGTTGGGAAAGATATTCTTTCCTGCATTGTGTAGAGAAACGGGAAGTATAT
GTGTGTGTGTATGTGTTTTTTTTTTCCTCTTTCCGCACGGAAACTTCCCGCTTTCTTCACATCCCCTGCAAAAGCACCGC
ACAATGAAAAGAAAAGAAAAGAAAACAT-----TTCTGCTCGTTCATGGC-TTCATTGTCAGACCCCTCTTCTTCTTGTG
ATCCTTTTCTTTATCGAACTCCCCTGCCTGTTACCAAGCA--------------GAGAACGTGCACGAGCGACAGATTTT
GGATTTCGCCGACTCGACAGCA-----CACGAGAACTAGTGGACAGTGATGGCAGATACTACTTCTACTACCACCATCAC
GTGAATCTACAGCCTTGTTTGCGCGAGGTCCGAGGTCAGATCGTCGAGAAGCAAAATAGTGTAGTGCTGCGTACTAGCGC
TTGGATCCAAGC---CGACGACTGGCGGATTTGGATCCTACTCACCGGAGATGTTCACGTGGCGGTGCGCACCGCCCTTT
CCCCCCGCGAGAGAT--AGAGATAGAGAGCCTTTCCACCCACTGCATCT----ACACGACGTGTATGACACTACGGGAG-
---CCCGCGCGGCTCACTGGAGCAGGTTCGCGTGCCGCTGTGTGCCTCCGTGAGCGCTCCGCGTGGCCCGCCGACCGTTT
ACTCCTTTCCCCAAGCCCAAGCCCAAGCCCAAGCCTGCCTATTAAAACCCAGCGCTACTCATCCTCTGCCTCCCTGCCAG
TTCATTACTCTT----CTCCTCGCTCCCAGTTTTGAATCGAGAGAGAGAGAGAGAGAGAGGTGTTGGGTGCAGCTAGTAG
CTAGGAGCAAGCAAGCAGATCCAGGAGGA------------GCAGAGCGGAGCGGAGATGGCGGACTGGGGGCCGGTCGT
GGTCGCGACGGTGCTCTTCGTGCTGCTGACGCCGGGGCTGCTGTTCCAGCTGCCGGCGCAGGGCCGGATCGTGGCCTTCG
GCAGCATGCACACCGGCGGCCTCGCCATCCTCATCCACGCCGTCATCTACTTCGCCCTCATCACCATCTTCCTCATCGCC
ATCGGGGTCCACATCTACGCCGGCTAGACCCCACACCCACTCCTCTTCGCCGCACATCTCCGCCGTGCGTGCC-------
TATGAAGCTTTGCTGTCCCGGAGGCGGCT---TCTCTTACTATTACCGCTTGTATTGTACTTACTGTGTAGTGGGTACCT
TCTATTATTGTCTTCTTCATTTAGGTGGCCAGAGAAACAA---------------ATATGGTTTGTTGTTTGCCTGGCTG
--GGATTTCGTTTGAGATGGCTGCCAGTGGCATGGCGCTCTCCGTCTCTGGGATGAAAATTTATCCAGA-AAGGCTGGCT
GGTGTTGCTGCTGCCGTTGCCCTTGTGATTCCTCTCTTGAGTTAACCTTGGACATGTTAATTTATCCATCTTTTTCACGC
TGCTCTTCTTCAAATCATACTGTATCTTT------CTTCTTCCTTGG-AGAAAGTTGTGTGTT-CGAGTTACCTGAACGA
ACGCACGTCATTCAGAATATAAGCTAAAGAACAAGAACCCATTCCAGCTCTGCTGCGTGCACTGTGCAGTTGTACTGAAC
TCCTCCCGGTT-------------------------------ACCT-TCAGAGTCTGCCCGTAGCTTGCACCAGTAGGTC
TTGTCACT-CCCTTTGCGCACTTCGCGGATCGTTTCGTTTGGGTGGGTGTGAAGGTCTTGCTCG-CCCCTGCTCCCCTGC
CGCATATGCTGCGCTGGACCAAATCGGTTCATGTGCCATTTCAAAAAAAAAAAAAGGATCGGTTCATGTGCAGATGTGCT
CCCACCGACCGGATCACCTTTGCTCCCATCGGCCGTAAGCAACTTGGGGGCTATTAAGCGGCTTCGAATCGGATTCTACT
CCGCTGAAAAGTCACATCGAACCGACACACACCGAGGCCGGACTTAGACAAATCCGTCCCTGCGCGTATGCGGACATTAA
CGTCTCAAGTATTTGATTTTATAATTAGATAACTTAAATTAGAAACCTCAGCACATCCGGTTTCGCCGTGTCCATGTCTG
GTGGTCGGTTATGCTCCTCAGAATGTTGGTTTGGTCACCGGCAAGATAGAGTAGGGCACGGGACATGTGCCGGTTCAGGA
GACTTAAAGCGCCGCCGTCTTACATGTCCTACTCTTTCTTATCATAGCCCGGACCCCGAACAATGCTGGAGGAGTCAGAT
CGATTATGGATCCGTTTTGGGATGAGCTAATGACATTCACCATGACGCGATTACGGCGTCCGAACTGCTTCATCATACGG
GACGCTGGAAAATGCAAATCCGCCTCGTTGACGTCCACCGTTGTGAAGGCTGTCGTTGCCTCCCACGCCCGCTGCCTCGC
ACGGCGGGTACGTGTGTCATGTTCGGACGACGCTCATGATGCGTCCATGGCCTCGGTGGGAGGGGTTGCGCGTTCGTCAC
CATGTTCAAACGTTAGACGGACACATCATCTCGGTGAGGCATCAACGACACATCTAGCGCCGGATTCATGCAACATTTGG
ACGGACACAACGAATTTTCGGCGGAAGGAGTCCTAGCACTGTCTCGCATGGGCCTGTTTTCAAAAACGGCTAGGGTGATG
AAGAGAAGTGAAGTGAAGTAAAGTGGTTAGAGTTTGATCTAGAAAGCGAACGAAGAGGAATATATGTGGGTCAGGTATGC
CAGCGTAGACGGCTTCGATATGGCGGACGTCCGTCAGGGCGGCTCATATTTAAGCCGGATATAAGCCATGCCGGTCACTT
CAGACATTTAAGGCCTGTTCTTTTGGGCGTTTGAGACGAGTTTGCCGCGTTTGTGCTCTTAAGCAATAAAGTGTTCCAGC
CGGATACACCATGAAAAATGATCTTTGGGCACCTTCAAACCCCGACCCTCAAACTGCATGGTTTGGATATGTTTTATCAT
CTAACACGGTTTTATGTCAGTTTACTCAATGATGGTTTTTTTCCGTAGACCGGTAGACAGATAAACCTGAGAGACAGCAA
CATGGGGCATAGGCGATTAAGCAGCTTCGAATCGGATTCTACTCCGCTGTAAAGTCACTTCGAACCAACACACGCTAT-A
GTTCAAACCGGACCTCCTATTGAAAAGTCAATTTGGACAGGACAAACTACTCAGGTTAAGCTGACTACAC----------
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>chr4D_105
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------------------------AAATGCCAAATGGTGTCGGTTTTGCCTTTCACGGAACAAATGC-GTCGGTATGGTA
ACATGTCCCGGTCATTCCTTTCGTGTTTCTGTTAGGAAAGATATTCTTTCCTCCATTGTGTATAGAAACGGGAAGTATAT
CTA-------------TTTTTTTCTCTCCTTTCCGCACGGAATCGTCCCGCTTTCTTCACATCCCCTGCAAAAGCACCAC
ACAAAGAAAAGAAAA-----GAAAGCAT-----TTCCGCTCGTTCATGGC-TTCATTGTCAGATCC--CTTCTTCTTGTG
ATCGTTTTCTTTATCGATCTCCACTGCTTGTTATACTCCTAACCAAGCAGAGCGGAGAACGTGCACGAGCGAAAGATTTT
GGATTTCACCGACTAGACGGCACGAGGCACGAGCACTAGTGGACAGCAATGGCAGATACTACTTCTACT------ATCAC
GTGAAACTACAGCCTTGTTTGCGCGACGTCCGAGGTCAGATCGTCCAGAAACAAAATAGTGGAGTG-------CTAGCGC
TTCGATCCAAGCCGACGACAACTGGCGGATTTGGATTCTACTCACCAGAGATGTTCACGTGGCGGTGCGCACCGCCCTTC
CCCCC-GCAAGAGATGGAGAGGTAGAGAGCCTTTCCACCTACTGCATACGCACACACGACGTGTATGACACTACGGGAAG
GAACCCGCGCGGCTCACCGGAGCAGGTTCGCGCGCCGCTCTGTGCCTCCGTGAGCGCTCCGCGTGGCCCGCCGACCGTTT
ACTCCTTTC------------CCCAAGCCCAAGCCTGCCTATTAAACCCAA-CGCTACTCTTCCTCTGCTTCCCTACCAG
TTCATTACTCTTCTTGCTCTGAATCGCGAGAGAGAGAGGGG--GAGAGAGAGAGAGAGAGGTGTTAGGTGCAGC---TAG
CTAGGAGCAAGCAAGCAGATCCAGGAGGA------------GC----------GGAGATGGCGGACTGGGGGCCGGTGGT
GGTCGCGACGGTGCTGTTCGTGCTGCTGACGCCGGGGCTGCTGTTCCAGCTGCCGGCGCAGGGCCGGATCGTGGCCTTCG
GCAGCATGCACACCGGCGGCCTCGCCATCCTCGTCCACGCCGTCATCTACTTCGCCCTCATCACCATCTTCCTCATCGCC
ATCGGGGTCCACATCTACGCCGGCTAGACCCCC--CCCACTCTTCTTCGCCGCACATCGCTTCTCGGCTCTGCCGCGCGT
TATTAAGCTTTGTTGCCTGCCGAGCTTGTCTGTCTCTTACTACTATTATTGTTGATGTACTGTGTGTGTAGTAGCTTCTG
TTGTCTTC-----------TTTGGTTGATCGGAGAAACAATCGGAAGCTAGTAGTATATGGTTTGGTGGTC----GGCTG
--GGGTTTCGTTTGAGATGGCTCTT------------------GTCTCTGGGATGAAATTTTATCCAGA-A----TGGCC
GTTGTTGTTGCTCCTATTGCCGTTGTGAATCCTCTCTTGAATTAACCTTGGACGTGTCAAATTATTTATTTCTCGCTTGA
CATTCAACTTTTTGTTTGTTTTCTTCAGCTATCTGCTGCTTCCGTAG-AAAAAGCTATGTGTTCCGAGTTATCTGAATGA
CACCACCTCACTCAAAATCAAAAGACACGGAACAAATACCATTGCAACTCTGTTGCGTGCACTGTGCAGTTGTACTGAAC
TCCTCCCGGCTACCGGTTACTGATTTGTAGCAGCAAATGTTAACTT-TCAGAATCTGCCCGTAGCATAG--TAGTAGGGT
TTGTCACTCCCTTCTGCGCACTTCGCGGATCGATTCATTGGGGTGGGCGTGACGGTCATGCGCCCCCCCGGCTCCCCTGC
CGCATAAACTGCGTTGGACCAAAC-----------------------------------CGGCTCACGTGCAGATGTGCT
CCCACCGACCGGATCCCCTTTGCTTGCATCGGCCGTCAGCAACTTGAGGGCAT---------------------------
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--------ATATGCGATTAAGCAGCTTCGAATCGGATTCTGCTCCCCTGCAAAGTCACTTCGAACCGACGCACGCTAA--
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>SNPs
SSSSSSSSSSSSSSSSSSSSSS---S-----------------------S-S----S-----------------------
--------------SSSSSSSSSS--------------------------------------------------------
------------------------------------------------------------------------S------S
------------------------S------------------S----S-------------------------------
------------------------SS-SSSSSS---------S----S-SS-----S-----------------S-----
-----------------S-----SSSS-SS-S---------------------------------S--------------
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---------S----------------------------------------------------------------------
S---------------------------------------------------------------------------S---
-----------------S----S-----------------------------------S---------------------
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-----------------------------S------------------------S-------------------------
---------------S----------------------------------------------------------------
--S-------------S------------SSSSSSSSSSSS---------------------------------------
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-----S--------------------------------------------------S-----------------------
----------------------------------S---------------------------------------------
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SS----------------------S-----------------------------------------S--S---SS---S-
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---S----S-----S--------------------S-----------S--------------------------------
----------------------------------------------------------------------S---------
-------------------------------------------S-SS---------------------------------
-------S------------------------------------S---SS------------------------------
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-------------------------------S---------S------S-------------------------------
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---------S--------------------------------------------------------------------S-
-------------SS-SSS-S------------S-S--S-S---S----S---------S------S---SSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
>forward_432
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------------ATCGACCTCCCTGCTTGTTG------------------------------------------------
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>reverse_3531
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----------CGACGTGGTAACGGAGATCC----------------------------
