>input_sequence_74550
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--ATGGCAAGCACTGATGATCCGAAGAACGAGCCGTCGTCCCCTTGGTCCATTTTTAATTGGAATAACAAAGCAGGTAAG
GTTAAGGGGGTCTCCTGCATCCAATTCCAAGGATACGAACACACAAATACCCCCCCTTTTTTTTCTGACAACA-------
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----------------------ATGTGAACTACTATCTGCTACCAGAGCCGGAGGTCGAGCAACCCAGAATGAGAAGCAC
CCAAGAGATCCTCACAAAATATAAATTCAACGGGGTATTATATTTCTCCACCTTTGAATTTTGCATTTACTCCTATATTG
CTTGTCTCTTGCTGATTTAGCTAGTAGCTGTAAATTGCGCTCCAGGATGCTGCCGCGGCAGCGGCGCACGCGAAGGATAA
GCTCATGGAGCGGCAGGAGAAACTCGCGGTAAAACGATTTGGTTCCTTCTATTGTTCAATCGACGCCAAGAGAGTACGGT
AAATCTTGACGACACTGACATCCTGTTTCTTGGATGCCAGAAAATGGTCGAAGAATCTGCAGAGTTTGAGAGCGAGGCGG
AAAACTTTGCCACCCTCGGCCAGCAGGTCAGGAAATCCCTGGAGACCAAGAGATGGTGGTGGCCATCGTGA---------
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>chr4A_1_TraesCS4A01G109400
TGGTTTCCTGGTAAATATAGTGGATTGTGCAGTCGGAGGCACACCGTCTTGTAG----TACTGTAAACTAAGGTTAAATT
GTAACACTGGATTGGATTCTGCTGCACAGTTTCTGTATCTTAAACTTGTGAAATTGTTTGCACAGAATTTAAAATTACTG
AATTCGACAGGCATACTCCAGAGTGAGAAGTTGGCTCTTGTATAATGCCAGCTTAACCCAGGACAGACAGCGGTAAGTTG
TCCGGCTCGTTGGTGGCAACTGCATGCGTGGGTCCTGAACACCTCCGCCTGGGTCGTGGTCTTTCAGAAGGCCCCGTGCA
CATGTTGTTTCCTTGGATCAAGATCGATTCTCTTGAGGCCGTTTTGCCTGCACATGTTTTTCTTTTTTCTTTTCCAATTA
GCACATGTGTTCTATCTATTCCTATGTTGTCAAGGCAATTTCTTCTGTGGCTTCCGTGGGTAGTTTCAGCTAGATCGTCC
CGAACTCCCAGATGCCTATAGCCAGAACATATATGGTTCGAAAAAGGAAGAAAAAAAATGACAGGCGTATGCTGCCCAAA
AATAAGCGCTCCCAAGATATTGGTGGCACGCCACAGTTCAAGGTGGCCAACCAAACGTTGGTGGCCAGAAAGAAAAAGAC
CGTCTCTGTTTTGCTCTCT-------------TTGCTGGCTGCTATCCACGTTGGGGTCTCGAATTCACCTTGGATTTCG
TAGCGTAGAACAAAGGCTCCGTCCGTC-----------------CGTCAAGCATCCTCTGTCGCAGGTGAATTGGCTCTA
AATGTCTCCGCCTGTTCCGCTGGATTCCGGCTAC---CAGATAAGGCGGCGTGGCATGTTGAAATTTATTTGATCTCCTC
TCTGTTGTCTGTTGTA----CTGGCTTAACATGAAGTTTCCAACGCAGGAT-GATCTAATAGCTGTTAGTTCTTGGTAGC
ATCGATCACATCAAGAAGGATTCAAAGGAAAAAAGTGCAATTGAAATAAAGTTTCACCACACGAAACCTAAGCGAGAAGC
CGATGGCAAGCACTGATGATCCGAAGAACGAGCCGTCGTCCCCTTGGTCCATTTTTAATTGGAATAACAAAGCAGGTAAG
GTTAAGGGGGTCTCCTGCATCCAATTCCAAGGATACGAACACACAAATACCCCCCCTTTTTTTTCTGACAACA-------
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----------------------ATGTGAACTACTATCTGCTACCAGAGCCGGAGGTCGAGCAACCCAGAATGAGAAGCAC
CCAAGAGATCCTCACAAAATATAAATTCAACGGGGTATTATATTTCTCCACCTTTGAATTTTGCATTTACTCCTATATTG
CTTGTCTCTTGCTGATTTAGCTAGTAGCTGTAAATTGCGCTCCAGGATGCTGCCGCGGCAGCGGCGCACGCGAAGGATAA
GCTCATGGAGCGGCAGGAGAAACTCGCGGTAAAACGATTTGGTTCCTTCTATTGTTCAATCGACGCCAAGAGAGTACGGT
AAATCTTGACGACACTGACATCCTGTTTCTTGGATGCCAGAAAATGGTCGAAGAATCTGCAGAGTTTGAGAGCGAGGCGG
AAAACTTTGCCACCCTCGGCCAGCAGGTCAGGAAATCCCTGGAGACCAAGAGATGGTGGTGGCCATCGTGATTCATAAAC
CAATCGTCCGGTCATCAAGCGATGTGATGTGATGTAGTGTAAAAAACGCTTCTTATATTATGGGACGGAGGGAGTAATAC
CAATGTGTTTAGCGTGCCTGGCTGCTGCACTGGTCTGCGCATGCTAAATGAAACGAGAGCAAGACGTTGCCTTTTAGCAA
CAAGTGGGAATGATTGTGGACGGATACATGTATCTACTC----TACTTAGTTTTAATTAATCATGTGATGGTGATGGCTG
ACGACCGTGCGATGAACTTCTCACCCGCCAGCACCATACATGTA----AC------------------------------
------------------------------------------------TAGCTCTTATCGTGGACGGATAAATGGTACGA
GGTGGCATATTTTGCTTGCGGATCGAATGGTGCTAAGAGAGGACACGGGTGGCGTGTACCAGCCATGGGTTGGAGGCTTC
TCCGATTGGACCGTCCATTGATGAGGTTAGGCTGCTTGCTGGTTCCCTTTTCCACTTGCCACGTCACCTCTCCAGTTTTT
TTTTGAAACATCAAGACTTTATTCCTTAAATCAAAGGCAGGTTGTTTACAATAGCATGAGAAATAAAGTCCGGAATATTA
GATTCCCCAAAAGAGGAAGATCTATTGCTAAAAGAGTTGCTAGCTAAGATATGAGCAGCCTCATTAGCTTCACGAGACAA
TGAGAGTATACTGTATTGGCCAAATCAAGAGCAAGTTCTCTGCACTCCAAAATCGTGGCTATATTTAATCCCGTATAATC
CGAGTTCTGCACTGATTCCACCACGAAACTGCTGTCAGACTCAACTTGAACTTTGTTGCATCCGAAAACTTGCTTGAGTA
AGCACGGATAAAGTTGGTAGCTAGAACTCTAATTGATATGGCTACTTTCTCTGCTGTTTGAATCAGTTCCCCTTTCATAT
GTTAGCGCCTCTGCCACCAAAGATACCAGGCCGCCACCAGTATTAGTTCGGACGTGGGCAAACCTTTAGAAACGCCCTGT
GTCCGACTGAGAATCTTGTAGTTACTGATCCAGACCG
>chr4B_1
TGGTTTCCTGGTAAATA--GTGGATTGTGCAGTCAGAGACACGCCATCTTGTAG----TAATGAAAATTAAGGTTAAATT
GTAACATTGAATTCTACC-----GCACAGTTTCTGTATCTTAAACTTGTGAAATTGTCTACACAGAATTTAAAATTACTG
AATTCGACAGGCATACTCCAGAGTGAGAGGTTGGCTCTTGTATAATGCCAGCTTAACCAAGGACA---------------
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-----------------------------------------------------------GACAGGCGTAAGCTGCCCAAA
AATAAGCGCTCCCGAGATAGTGGTGGCAGGCCACGGTTCAAGGCTATCAACAAAACA--GGTAGCCAGCAAAAAAAAGAC
CGTCCCTGTTTTGCTCTCTTTCATCCCTCTCTTTGCCGGCTGCCATCCACATTGGGATCTCGAATTCACCTTGGATTTTG
TAGCGTAGGGCAA-GGCCGCGCCTTTTCTCAGGCTGCCCTGCTGCGTCAAGTGTCTTCTGTCGCAGGTGAATCGG-TCTA
AATGTCTCCGTATTTTTTGCTGGATTTCGGCTACCTGCAGATAAGGCGGCATGGCATCTTGGGATTTAGCTGATCTCCTC
TCTGTTGTCTGCTCTGCTGGCTGGCTTAACATGAAGTTTTCAACACAGGAGGGATCTAATAGCTGGGA-TTCTTGGTGGC
ACCGATCACGA----AAGGATTCAAAGCAATATAC------TGAAATAAAGTTTCAGCACACGGAACCTAAGCGTGCAGC
TGATGGCAATCACTGATGATCCGAAGAAAGAGGCATCAA---CTTGGTCCATTTTTAATTGGAATAACAAAGCAGGTAAG
GTTGAGGGGGTTTCCTGCATCCAGTTCCAAGGGTAGAAACA-------ACCACCCCCTTTTTTTCTGACAAGA-------
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----------------------ATGCTAACTACTATCTGCTACCAGAGCCGGAGGTCGAGCAACCGAGAATGAGAAGCAC
CCAAGAGATCCTCACAAAATATAAATTCAACGGGGTATTATATTTCTCCACCTTTGAATTTTACATCTACCCCTATATTG
CTTGTCTCTTGCTGATTTAGCTAGTAGCTGTAAATTGCGCTCCAGGATGCTGCCGCGGCAGCGGCGCACGCAAAGGATAA
GCTCATGGAGCGGCAGGAGAAACTCGCGGTAAAACGATTTGGTTCCTTCTGTTGTTCAATCGACACCAAGTGAGTACGGT
AAATCTTGACGACACTGATATCCTGTTTCTTGGATGCCAGAAAATGGTCGAAGAATCCGCAGAGTTTGAGAGCGAGGCGG
AAAACTTTGCCACCCTCGGTCAGCAGATCAGGAAATCCCTGGAGACCAAGAGATGGTGGTGGCCATCGTGACTCACAAAC
CAATCGTCCGGTCATCGAGCGATGTGATGTA--GTAGCTTAAAAAACACT-CTTATATTATGAAACGGAGGGAATAATGC
CAATGCGTTTAGCATGCCTGGCTGCTGTACTGCTCTGCGCATGCTAAATGAAACGAAACCAAGACGCTACCTTTTAGCAA
CAAGTGGGAATGATTGTGGACGGATACATGTATCTACTC----TACTTAGTTTTAATAATTTC-GTGATGGGGATGGCTG
ACGACCGTGCGATTAACTTCTCACCCGCCAGCGCCATACATCACATGTAC------------------------------
------------------------------------------------TAACTCTTATCTTGGACGGATAAATGGTACGA
GGAGGCATATTTTGCTTGCGGACTGAATGGTGCTAAGAGGGGACACGGGTGGCGTATACCAGCCATCGGTTGGAGGCTTC
TCCGATTGGACTGTCCATCGATGAGGTTAGGCTGCTA-CTAGTTCCCTTTTCCACTTGCCACGTC---------------
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>chr4D_1
TGGTTTCCTGGTAAATA--GTGGATTGTGCAGTCAGAGACACACCGTCTTGTAGTACTTACTGTAAACTAAGGTTAAACT
GTAACACTGGATTCTACC-----GCACAGTTTCTGTATCTTAAACTTGTGAAATTGCTTGCACGGAATTTGAAATTACTG
AATTTGACAGGCATACTCCAGAGTGAGAGGTTGGCTCTTGTATAATGCCAGCTTAACCCAGGACAGACAGCGGTAAGTTG
TCCGGCTCGTTGGTGGCAACTGCATACCTGGGTCCTGAACACCTCCGCCTGGGGCGTGGTCTTTCAGAAGGCCCCGTGCA
TATGCTGTATCCTTGGAGCAAGATCGATTCTCTTGAGGCCGTTTTGCCTGCACATGTTTTTCTCTTTTCTTTTCCAATTA
GCACATGCGTTCTATCTATGTT-----------------------TGTGGCTTCCGTGGGTAGTTTCAGCTAGATCGTTC
TGAACTCCCAGATGCCCATAGCCAGAACATATATAGTTCGAAAAAGGAAGAAAAAAAATGACAGGCGTATGCTGCCCAAA
AATAAGCGCTCCCAAGATATTGGTGGCACGCCACAGTTCAAGGTGGCCAACCAAACGTTGGTGGCCAGAAAGAAAAAGAC
CGCCTCTGTGTTTG------------CTCTCTTTGCTGGCTGCTATCCACATTGGGATCTCGAATTCACCTTGGATTTCG
TAGCGTAGAACAA-GGCTCCGTTCGTC-----------------CGTCAAGCATCCTCTGTCGCAGGTGAATTGGCTCTA
AATGTCTCCGTCTGTTCTGCTGGATTCCGGCTACC---AGATAAGGCGGCAAGGAATGTTGAGATTCCTTTGATCTCCTC
TCAATTGTCTGTTCTGCTGGCTA----AACATGAAGTTTCCAACGCAGGAT-GATCTAATAGCTGTGAGTTCTTGGTGGC
ATCGATCACACTGAGAAGGATTCAAAGGGAAAAAC-GCAATTGAAATAAAGTTTCACCACACGAAACCTAAGCGAGAAGC
CGATGGCAAGCACCGATGATCCGAAGAACGAGCCGTCGTCCTCTTGGTCCATTTTTAATTGGAACAATAAAGTGGGTNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNATGTGAACTACTATCTGCTACCAGAGCCGGAGGTCGAGCAACCGAGAATGAGAAGCAC
CCAAGAGATCCTCACAAAATATAAATTCAACGGGGTATTATATTTCTTCACCTTTGAATTTTGCATGTACCCCTATATTG
CTTGTCTCTTGCTGATTTAGCTAGTAGCTGTAAATTGCGCTCCAGGATGCTGCCGCGGCAGCGGCGCACGCAAAGGATAA
GCTCATGGAGCGGCAGGAGAAACTCGCGGTAAAACGATTTGGTTCCTTCTGTTGTTCAATCGACGCCAAGAGAGTAAGGT
AAAT----------CTGATATCCTGTTTCTTGGATGCCAGAAAATGGTTGAAGAATCCGCAGAGTTTGAGAGCGAGGCGG
AAAACTTTGCCACCCTCGGTCAGCAGATCAGGAAATCCCTGGAGACCAAGAGATGGTGGTGGCCATCGTGATTCATAA-C
CAATCATCTGGTCTTCGAGCG------TGTGATGTAGTGTCAAAAACGCCTTATATATTATGAAACGGAGGGAGTAATAC
CAATGCGTTTAGCATGCCTGGCTGCTGCACTGGTCTGCGCGTGCTAAATGAAACGAGAGCAAGACGTTGCCTTTTAGCAA
CAAGTGGGAATGATTGTGGACGGATACATGTATCTACTCCTACTACTTAGTTTTAATTC---C-GTGATCGCGATGGCTG
ACGACCGTGCGATTAACTTCTCACCCGCCAGCGCCATACATGTACTATTCCTTTTAGTCTCATAATATAAGACGTTTTGT
ATTATTAGTATAGTGTTAAAAAAGTCTTACATTATTGGACGCAGGAAGTAGCTCTTATCGTGGACGGATAAATGGTACGA
GGAGGCATATTTTGCTTGCGGGCTGAATGGTGCTAAGAGAAGACACGGGTGGCGTGTGCCAGCCATCGGTTGGAGGCTTC
TCCGGTTGGACCGTCTATTGATGAGGTTAGGCTGCTTGCTAGTTCCCTTTTCCACTTGCTATGTCGCCTCTCCAGTT---
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>SNPs
-----------------SS---------------S---S-----------------------------------------
-------------SS-SSSSSSS---------------------------------------------------------
----------------------------S---------------------------------------------------
-------------------------S-S-------------------------S--------------------------
S---S---S--------S---------------------------------------------S----------------
-------S-----------SSSSSSSSSSSSSSSSSSSSSSSSSS---------------------------------S-
S---------------S-----------------S---------------------------------------------
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--------------------------------------------------S-----S-----------------------
-------------S------------------------------------------------------------------
----------S------S--------------------------------S-----------S-----------------
-------------S-S--------------------------------------------------S----------S--
----------SSS---------------------SS--------------------------------------------
-----------------------------------------S--------------------------------------
---S-------S-----------S--------S--SS----SSSSSSS---S----S--------------S--------
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-----------------------------------------------------------------S--------------
------------------------------------------------------------------S---S---------
-----------------------------------------------------------------------S--------
--------------------------------------------------S-----------------------------
------------------S--------------------------------------S----------------------
-------------------S------S-----------------------------------------------------
----------------S---------------------------------------------SS----------------
-----S-------S------------------------------------------------------------------
-----------------------------------------------------------S-SSS-------S--------
-------------S------------------S-----------------------------------------------
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--S-------------------SS------------------------------------------S-------------
----------------------------------------S------------------------S-----------SSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
>forward_39
-------------------GTGGATTGTGCAGTCGGAGG-----------------------------------------
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>reverse_1898
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---------------------------------------------------------TGCAGAGTTTGAGAGCGAGG---
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>forward_691
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-------------------------------TTTGCTGGCTGCTATCCACG-----------------------------
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>reverse_3003
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------------------------------------------TTAGTTCGGACGTGGGCAAA------------------
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