>input_sequence_56786
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--ATGGCGAAGATGGCAAGGTCGACGAGGAGGACGTCTAATCTCATTTGCACCCTGCTCCTGCTCTCGCTGCTGCTGCTT
ACCTGCTTATTCCAGCAGGCCAGCGGCCATGGCGGCGTCGACCACGGTGACGGCGATGAGGA---CGAAGATGCCCACCA
CGGCGACGCTGGCGTTGGCGGCGGCGGGCTCCGGTCCAGGGGCCTCATCGCCGTGAAGGTGTGGTGCCTGGTGATCCTGC
TGGTGTTCACCTTCCTGGGTGGCGTGTCCCCCTACTTCTACCGCTGGAACGAGGCCTTCCTCCTCCTCGGCACCCAGTTC
GCCGCCGGCATCTTCCTCGGCACCGCGCTCATGCACTTCCTCGCCGGCTCCACCTCCACTTTCAACGCGCTCACCCACAG
CCCCTACCCCTTCTCCTTCATGCTCGCCTGCGCCGGCTTCCTCCTCACCATGCTCAGCGACGTCGCCATCGTCGCAGTCG
CCAACAGGCAGAGGGTCAACCAGGCGGCGCCCATCCAGAAAGAGGCCGAGGAGGAGGGCGAGTCGGCGTCGGCA------
---GCGGCGCACGCGCACCCGATGCTCATGACAGCGACGTCGTCATTCGAGGATGCGATCCTCCTCATCGTCGCGCTCTG
CTTCCACTCCATCTTCGAGGGGATCGCCATAGGCGTTTCAGGTGAATGAACACCATAGAGCCATTTCATAGTTTTCCACG
TATGCAGCATGATATATAGGC-----------------------------------------------------------
-----------------------ATTAAGGAACGAATAGTTTGTGGTGTA------------------------------
------------AAAACCTGAACTAACAGAGAAAAGTGCACACCGTGAAAGGTCATGCTCCTATGTTTCAAAAGTTTGAT
AAAAATCAATTAAAATTGCAGCGACGAAGGGTGAGGCATGGAGGAACCTATGGACGATCGGGCTCCACAAGATCTTTGCG
GCGGTAGCCATGGGCATTGCACTCCTGCGAATGATCCCCAAGCGTCCGTTCCTCATGACGGTGCTCTACTCGCTGGCCTT
CGCCGTGTCAAGCCCGGTTGGGGTGGGCATTGGTATCGCCATCGACGCCACGGCGGAGGGCCCGGCCGCGGACTGGACAT
ATGCCATCTCCATGGGGATCGCCACGGGGGTCTTCGTCTACGTCGCCATCAACCACCTCATGGCCAAGGGGTACCGCCCG
CAGCAGCCAAACTACTTCGACAAGCCCATCTTCAAGTTCCTCGGCGTGCTTACCGGCATAGCCGTCATGTCTGTCGTCAT
GATATGGGACTGA-------------------------------------------------------------------
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>chr3D_1_TraesCS3D01G532400
TGTCGCTAACTTAGTACAACTTTGAAGAAGGTAGTATGAAGTTTCTTAAACAAAAAGTACCTAACAATGAGCACGTATGA
TCTCGACATCGACTTTTGCTTTTTCTACAATCGGTCTGTTGCAAGGTATATAGCTGGATAAGTATATCGGTTTTACTAGT
CCTTAGTCAACTGAGATTTACTCAAGTCTGAGTCGATTTCCGGAAACGCAA-------CTTACGGTCTTCTCACCAAACT
GAATAAACTGAAGTTGCATTTTCTTAAGAATTGATTAAGACATA-AAAAAGTGTCAATCAAACTGAGGCTTAGATGAATC
CTATAAATAAACAT------------TATCCTCTGTCCAGTCGTTGCCATTTGAATATAAATGCTACTCCCTCTCATCCA
AAATAAGTGTCGTAGTTCTGAACTTGGGTTAGTTCAAAAGTGTGACACTTATTATGGATCGGATGTAGCATATATGATGT
CTCTGGACAGGAAAGTACCTAACACGTATGGTCTCCACATCAAGTTTCGCTCTTTCTACAGTCGACTGAGATTTTCTCGA
GTCTGATTCGTTTTCTTCAAATGCAACTTATGGTCGTCGCTCAACTGAATAAACTGAAGTTGCATTTTCTTAAGGA----
-TGAGACATAAAAAAGTGTCAATCAAACTGAGGCTTAGATGAATCCTATAAATAAACATGGGAATAAACTTA-GAGTAGC
GTTGACAATGACTAGCTGTTGTTGTACTACACACGGGCGATCAAGTTGTACTGTCAAGCAGTAGTACTACACACACACAC
ACACAAAAAGTCAGCCCTGTACTG-----CAAACAAGAACACAAGATGGAGTTATCTTACTAATTAATTATGGGATTTTC
TTCTAAATAATCATGCTTCAACG----CAAGATGAGCTGAGCTGAGGAGATAACTACATACGTAT----GTACGTACTGG
CCAAATATACC---TAAGAAACTCCTCTGCATATATACGTACGCGCTGGCCTAGAATTAGAAACCAACATCATCAATTCA
CCATGGCGAAGATGGCAAGGTCGACGAGGAGGACGTCTAATCTCATTTGCACCCTGCTCCTGCTCTCGCTGCTGCTGCTT
ACCTGCTTATTCCAGCAGGCCAGCGGCCATGGCGGCGTCGACCACGGTGACGGCGATGAGGA---CGAAGATGCCCACCA
CGGCGACGCTGGCGTTGGCGGCGGCGGGCTCCGGTCCAGGGGCCTCATCGCCGTGAAGGTGTGGTGCCTGGTGATCCTGC
TGGTGTTCACCTTCCTGGGTGGCGTGTCCCCCTACTTCTACCGCTGGAACGAGGCCTTCCTCCTCCTCGGCACCCAGTTC
GCCGCCGGCATCTTCCTCGGCACCGCGCTCATGCACTTCCTCGCCGGCTCCACCTCCACTTTCAACGCGCTCACCCACAG
CCCCTACCCCTTCTCCTTCATGCTCGCCTGCGCCGGCTTCCTCCTCACCATGCTCAGCGACGTCGCCATCGTCGCAGTCG
CCAACAGGCAGAGGGTCAACCAGGCGGCGCCCATCCAGAAAGAGGCCGAGGAGGAGGGCGAGTCGGCGTCGGCA------
---GCGGCGCACGCGCACCCGATGCTCATGACAGCGACGTCGTCATTCGAGGATGCGATCCTCCTCATCGTCGCGCTCTG
CTTCCACTCCATCTTCGAGGGGATCGCCATAGGCGTTTCAGGTGAATGAACACCATAGAGCCATTTCATAGTTTTCCACG
TATGCAGCATGATATATAGGC-----------------------------------------------------------
-----------------------ATTAAGGAACGAATAGTTTGTGGTGTA------------------------------
------------AAAACCTGAACTAACAGAGAAAAGTGCACACCGTGAAAGGTCATGCTCCTATGTTTCAAAAGTTTGAT
AAAAATCAATTAAAATTGCAGCGACGAAGGGTGAGGCATGGAGGAACCTATGGACGATCGGGCTCCACAAGATCTTTGCG
GCGGTAGCCATGGGCATTGCACTCCTGCGAATGATCCCCAAGCGTCCGTTCCTCATGACGGTGCTCTACTCGCTGGCCTT
CGCCGTGTCAAGCCCGGTTGGGGTGGGCATTGGTATCGCCATCGACGCCACGGCGGAGGGCCCGGCCGCGGACTGGACAT
ATGCCATCTCCATGGGGATCGCCACGGGGGTCTTCGTCTACGTCGCCATCAACCACCTCATGGCCAAGGGGTACCGCCCG
CAGCAGCCAAACTACTTCGACAAGCCCATCTTCAAGTTCCTCGGCGTGCTTACCGGCATAGCCGTCATGTCTGTCGTCAT
GATATGGGACTGATTCATCCATCCGTTAAATAAAGAGG--------GTGCTTTGATTTGATTATTCACATGC----ACAG
TGTGCTTAATTTCATTTGGGTTTTGTGTGG-GGCATTGTGCACATATGTACTTATCTGGTTTACTTACATTTGG-ACATG
TTTGGATTGTTTGTGTGAATGTGTGATCATTTGGAAAATGAGGAGATGAATAATTAGTTACCACATTTTTTAACTTGGGC
AATTATTATGTGGAGTTCGCTCACAAAGGGGCCTGTCACATCTCAAGTTTTACACTAACATGGGAAAATCAGATTCTTCC
TGGGTTTATTTGCAATCACCTAGATCACGATAGCCTATTAATTTCAAAAAACCAACAAAATAAAAAATTAGGCTTGATTA
TTTAAAATTATCCAAGGTCAACTATTAAATCAGAGCCATTATTAAGTTTAAAGTTTAAACTAACCGGATGAACTATAGCA
GGAAGAGCACTCAATTTATTATATTTTTATTAGGTGAGCAGAGCACTCAATTAGATCATGACAGCCTACTTCGTTTCTTT
TTTAAATGCAAATGAACCGAAGGCCTGCGCATGAAGAAAAAATAACAAACAGAAAAGGCTTCTATTTGGCCCAGCCCATA
TATTATTTCCTATTTCGTTTTCTTTTACCTTCACCTCTGTCTACGTCTAGAAAAAAAATACTCAGTCTACCATAAAATAA
AATTTTACTCACAGCAACAATATTTAATTGGTCCTGGAGAAATTAGTAGCAATATCAAATCACAAAACACACTCCCTCCG
TCCCAAAATAAATGGCATACAAACCAATTCAAAAAGTCAATGATTTTTAAGTTTGACCAAGCATATATAAAAATTATGAA
TACAAATTATATCAAATCAATATCAATATATCCACTATTATATATATATACATATATATTGATAATTTATTTATTTAATA
TTGCAATAGTTTCTTCTACATTTTTGCTAATTTTCTTCTATATTGGAGTTAGCTCAAAAAGGGACAT
>chr3A_93
CTG-----------------------------------------------------------------------------
---------------TTGCTTTTTCTACAGTCGGTCTGTTGCAAGGTATATAGCTGGATAAGTATATCGGTTTTACTAAT
CCTTAGTCGACTGACATTTTCTCAAGTCTGAGTCGATTTCCGGAAACGCAA-------CTTACAGTCTTCTCACTAAACT
GAATAAACTGAAGTTGCATTTTCTTAAGAATTGATTGAGACATA-AAAAAGTGTCAATCAAACTGAGGCTTAGATGAATC
CTATAAATAAACATATGAATAAACATTATCCTCTGTCTAGTCTTTGTCATTTGAATATAAATGTTACTTCCTCTCATCCA
AAATAAGTGTCATAGTTCTGAACTTGGGTTAGTTCAAAAGTGCGACACTTATTATGGATCAGAGGTAGCATATATGATGT
CTCTGTACAGGAAAGGACCTAGCACGTATGGTCTCGACATCAAGTTTCGCTCTTTCTACAGTCGACTGAGATTTTCTCAA
GTCTGATTCGTTTTCTACAAATGCAACTTACGGTCGTCGCTAAACAGAATAAACTGAAGTTGCATTTTCTTAAGGATTGA
TTGAGACATAAAAAAGTGTCAATCAAACTGAGGCTTAGAAGAATCCTATAAATAAACATGGGAATAAACTTAAGAGTAGC
GTTGACAATGACTAGCTGTTGTTGTACTACACACGGGCGATCGAGTTGTACTGTCAAGCAGTAGTACTACAAA-------
----AAAAAGTCAGCCCTGTACTCCACACCACACAAGAACACAAGATGGAGTTATCTTACTAATTAATTATGGGATTTTC
TTCTAAATAATCATGCTTCAACG----CAAGATG-----CGCTGAGGAGATAACTACATACGTACGTACGTACGTACTGG
CCAAATATACC---TA-GAAACTCCTCTGCATATATAT---CGTGCTGGCCTTGAAGAAAC-----------------CA
CCATGGCGAAGATGGCAAGGTCGACCAGGAGGACGTCTAATCTCATTTGCACCCTGCTGCTGCTCTCGCTGCTGCTGCTT
ACCTGCTTCTTCCAGCAGGCCAGCGGCCATGGCGGCGTCGACCACGGTGACGGCGATGAGGAGGACGAAGATGGCCACCA
CGGCGACGCGGGCGTCGGCGGG---GGGCTCCGGTCCAGGGGGCTCATCGCCGTGAAGGTGTGGTGCCTGGTGATCCTGC
TGGTGTTCACCTTCCTGGGCGGCGTGTCCCCCTACTTCTACCGCTGGAACGAGGCCTTCCTCCTCCTCGGCACCCAGTTT
GCCGCCGGCATCTTCCTCGGCACGGCCCTCATGCACTACCTCGCGGACGTCACCGAGACCTTCCACGCCCTCACCGACAG
CCCCTACCCCTTCTCCTTCATGCTCGCCTGCGCCGGCTTCCTCCTCACCATGCTCAGCGACGTCGTCATCGTCGCCGTCG
CCAACAGGCAGAGGGTCAACCGGGCAGCTCCCATCCAGAAAGAGGCGGAGGAGGAGGGCGAGTCAACGTCGGAGGGGCCG
GCGGTGGCGCACGCGCACCCTATGCTCATGACGGCGACATCGTCCTTCGAGGACGCGATCCTCCTCATCATCGCTCTCTG
CTTCCACTCCATCTTCGAGGGGATCGCCATCGGCGTTTCAGGTGA----ACACCATAGATCCATTTCATAATTTTCAGGT
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-----------------------------GAACGGATAGTTTATGTTGTACAACTACACTTATTTTGGGATGGAGTGAGT
ATTTTATATCGGAAAATCAGAACTAATAGAGAAA-GCGCACACCATAAAAATGCA------TATGTTTCAAAAGTTTGAT
CAAAATCAATTAAT-TTGCAGCGACGAAGGGAGAGGCGTGGAGGAACCTTTGGACGATCGGGCTCCACAAGATCTTCGCG
GCGGTGGCCATGGGCATCGCGCTCCTCCGGATGATCCCCAAACGCCCATTCCTCCTGACGGTGCTCTACTCGCTAGCGTT
CGCCGTGTCAAGCCCGGTAGGGGTGGGCATCGGCATCGCCATTGATGCCACGGCGGAGGGCT------CGGATTGGACAT
ATGCTATCTCCATGGGCATCACCACGGGGGTCTTCGTCTACATTGCCATCAACCACCTCATGGCCAAGGGGTACCGCCCG
CAGCAGCCAAACTACTTCGACAAGCCCATCTTCAAGTTCCTGAGTGTGCTCACCGGCATATCCGTAATGTGTGTCGTCAT
GATATGGGACTGATTTATCCGTCGGTTAAATCAAGAGGGTGTTTAAGTGCTTTGATTTGATTGCTCGCATGC----ACGG
TATGCTTAATTTCATTTTGGTTTCGTGTGGAT-CATTGTAGACATATGTACTTATCTGATTTAATTGCATTTGGTACATG
TTTGGATTGTTTGTGTGAGTGTGTGATCATTTGTGAAATGAGGTGATGGATAATTAGTTA--------------------
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>chr3B_130
--------------------------------------------------------------------------------
-------------------------------------------------ATAGCTGGTTAAGTTTATCGGTTTTACTAAT
CCTTAGTCAACTGAGATATTCTCAAGTCTGCATCGATTTCTAGAAATGTAACTTACCGCTTACGGTCTTCTCGCCGAACT
GAATAAACTGAAGTTGCATTTTCTTAAGAATTGATTGAGACATAGAAAAAGTTTCAATCATGCTGAGGCTTAGAC-----
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----------------------------------------GAATCCTATAAATAAACATTTGAATAAACTTA-GTGTAGC
GTTGACAATGACTAGCTGGTGTTGTACTACACACGGGAGATCGAGTTGTACTGTAAAGCAGTAGTACTACCAA-------
----AAAAAGTCAGCCCTGTACTG-----CACGCAGGAACACAAAATGGAGTTATCCTACTGATTAACAATGG--TTTTT
TCCTAATTAATCATGCTTCAATCAACACAGGATG-----AGATGAGGAGATA-------ACGTACGTACGTACTTACTGG
CCAAAATGTACCTGTA-GAAACCCCTCTGCATATATAT---CGTGCTGGCCTAGAAGAAAC------------CAATTCA
CCATGGCGAAGATGGCAAGGTCGACGAGGAGGACGTCTAATCTCAATAGCACCTTGCTGCTGCTATCGCTGCTGCTGCTT
ACCTGCTTCTTCCAGCAGGCCAGCGGCCATGGCGGCGTCGACCATGGTGACGGCGATGAGGA---CGACGAGGGCCACCA
CGGCGACGTGGGCGTCCGCGGTGGCGGGCTCCGGTCCAGGGGCCTCATCGCCGTGAAGGTGTGGTGCCTGGTGATCCTGC
TGGTGTTCACCTTCCTGGGCGGCGTGTCCCCCTACTTCTACCGCTGGAACGAGGCCTTCCTGCTCCTCGGCACCCAGTTC
GCCGCCGGCATCTTCCTCGGCACCGCGCTCATGCACTTCCTCGCCGGCTCCACCTCCACCTTCAACGCCCTCACCCACAG
CCCCTACCCCTTCTCCTTCATGCTCGCCTGCGCCGGCTTCCTCCTCACCATGCTCAGTGACGTCGCCATCGTCGCCGTCG
CCAACAGGCAGAGGGTCAACCAGGCGGCGCCCATCCAGAAAGACGCGGAGGAGGAGGGCGAGTCAACGTCGGCGGGGCCG
GTGGCGGCGCACGCGCACCCTATGCTCATGACGGCGACGTCGTCGTTCGAGGATGCGATCCTCCTCATCTTCGCGCTCTG
CTTCCACTCCATCTTCGAGGGGATCGCCATAGGCGTTTCGGGTGA----ACACCATAGAGCCATTTCATAATTTTCCACG
TATGCAGCTTGCTTGACAGGTACTCCCTCCGTAAATAATATAAGAGCATTTAGAATACCAAAGTAGTGATCTAAACGCTC
TTATATTAGTTTACAGAGGGAGTATTAAGGAATGTATAGTTTGTGGTGTA------------------------------
------------AAAACCTGAACTAACAGAGAAA-GTGCACACCGTCAAAATTCA------TATGTTTCAAAAGTTTGAT
TGACATCAATTAAAATTGCAGCGACGAAGGGCGAGGCATGGAGGAACCTCTGGACGATCGGGCTCCACAAGATCTTTGCG
GCGGTGGCCATGGGCATTGCGCTCCTCCGAATGATCCCCAAGCGCCCGTTTCTCATGACGGTGCTCTACTCGCTGGCGTT
CGCCGTGTCAAGCCCGGTTGGGGTGGGCATCGGAATCGCCATCGACGCCACGGCGGAGGGCCCGGCGGCAGACTGGACAT
ACGCCATCTCCATGGGGATCGCCACGGGGATCTTCGTCTACGTCGCCATAAACCACCTCATGGCCAGGGGGTACCGCCCA
CAGCAACCAAATTACTTCGACAAGCCCATCTTCAAGTTCCTCGGTGTGCTCACCGGCGTCGCTGTCATGGCCGTGGTCAT
GATATGGGACTGATGTATCCACCTGTTAAATCGAGCGG--------GTGATTTGATTTGACTCTTCACGTGCATATACAG
ATTGCTTAATTTCACTTTGGTTTTTCGGTGTGGCATTGTACACATATGTGTTTATCTGAACTGCATACATTTGGTATATG
TTTGGATTGTTTGTGTGAA-------------------------------------------------------------
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>SNPs
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSS--------------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-SSSSSSS
SSSS---------------------------S------------------------------------------------
----------------------------------SSSSS-------------------------S---------------
----------------S--------------------SSSS--S------------SS-SSSSSSSSSSSSSS-------
----------------------------------------------------------S---------------------
--------S----------------------------------------------------------------S------
---------S-----S-----S----------------------------------------------------------
-------------------S------------------------------------------------------------
-----------------------------------------------------------S--------S-----------
---------------------------------------------------------------------------S----
----------------------------------------------S-----------------SS-------S------
--------------------S-----------S-----------S------------------------S----------
---------------------------------------------SSSS---------------------S---------
--------S--S-SS-S---S-----------------------------------------------------------
----------------------------------S---------------------------------------------
----------------------------------S-----------S---SS---SSSSSS-------------------
S------------------------------S-----------------S------------------------------
-----S--------------S-----S-----------------S--------------------------------S--
------------------------------S--S--------------------------------S-------------
--------------------------------------------------------------------------------
--------------------------------------------S-----S-----------------------------
---------------S-------S-------S------------------------------S-----------------
-S---------------S---------------------S------------------S---------------------
---------------------------------SS--------S----S-----------SSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
>forward_1021
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-----------------------------------------CGCGCTGGCCTAGAATTAGA-------------------
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>reverse_2982
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---------------------GGCCTGCGCATGAAGAAAAA---------------------------------------
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