>input_sequence_77114
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-------------------------------ATGACTACTGTCCGAGTTCTTCTTGCAGTTGCCCTGGTCATCTCCCTGC
TCGCCCTTGGCCATC---CCCTTGCTCATGCCCGCCATGGTGAGTCTCATTTTTCTCTTCTTATTTGAATCGTTCATCTC
AAGTTTGTATTACTCCCCGCCAAGATTTCCTTATTTTCATTATTCATCTCAAGTTTGTATTACTCCCTCCGTCCCATAAT
ATAAGAGCGTTTTTGACATTGTCACAATTAGTAGTATTGTTGATCTCACCAGCTGCTCATATATTGCTTCTCGCAGTGAA
GGACCTGTCGTCCATGCCAACCGGTGATTCCTCGTCTGAAAAGAAAGGATTACAGCAAGGGAGTAACATGAAGCTCGATG
CCGGGAAGACGAAGAAAGTTGAAAACGTCGGAGTGGAGGAGACACCTAAGGGATCTGCTGAACCAAGCTTCGGCAACCGG
GGGAGCCTTGGTGCTGAGTCTGATAAGGTGGCCGTGTTTGCTCGCCGTGGAGAACCACCCAAGCCTCACCCGAAAAAACA
CAACTAA-------------------------------------------------------------------------
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>chr4A_1_TraesCS4A01G010100
TGGATCGACGTGGCACACCTGATCTTCTCTAAATTTATGTGGATTTTCTCATCGGTCGAGAGAGGTCGTAGGATTTTATG
GCGGCTAAAAAAATAAAATGGGGTAAAAATGTGTCACAAACATGCCTAAATTGAGTATAAATGTGAATTCTGAGGGTAAA
AAATGGAATTCACTCTACTACG------TACTAAAAATGACCCACCGCCACCTTTCACAGCTGCAGTGGTTTA-------
--------------TTCGTTGGAATTCGGGAACCGGCTTCTGTCAGATTCCTGAACTGCATAGTTTTTAAAACTCTTTTG
TTTTGAAGGTTGGTTGGATTCCTCAATGCTTAACCTTTAAAACTCACTCGAGGGTCGCA-------AGTTGCCTAGGAAC
AAAGGATCTTGGTCTTATGTGCGGCGCGGGACCGGGAGATAGGTACTCCTTCCGTTCTAAAATAGATAACCCAACTTTGT
ACTAATTTTAGTATAAAGTTGGGTCATCTATTCTGGAACGGAGATAGATCAAAGCGATGTGAAACTGGGTTTAAAAAACT
GGCGCCGTGGCACGCACAGTCGTACCTTCTCTCGCCTGTGGCGCCGATGTGTCGGGAGTCCAACAAGGAGCTCTTTTTTT
GCAATTTAACTGCAGGGAGCTCGGATCCCCAAAGGCAGCCACTGCTTGGCACACCCCCACGGTCAGAAGCCACACGTGAT
GCATCAGC---------------TGCGTGGCCCTCTGAGCAGCTGCACTAGT--------AACAGAGAGAAAGCTTACAC
TCGTAGGGTTTGTTAAACAACGCC-----------GCGGCAGATGTTCTGTACTTGTATATAACAGTT-TGTAAGAAATC
TGAGCTTTGACCACCCAGCTAGCAGCTAGTCATCGATCTGTATCTGACTACCAGTGTTTAAACTAACAAGCATTCTTCTA
TAAGAGCCCAACAAGCCTCGGCCTTCCTCCTCTCTTCACTCTCCTTGC--CATCACCCCTTCACCAGCCCGCCAAGATTT
ACCGGCCGTCGACAGTTAATTGGAGTTCACCATGACTACTGTCCGAGTTCTTCTTGCAGTTGCCCTGGTCATCTCCCTGC
TCGCCCTTGGCCATC---CCCTTGCTCATGCCCGCCATGGTGAGTCTCATTTTTCTCTTCTTATTTGAATCGTTCATCTC
AAGTTTGTATTACTCCCCGCCAAGATTTCCTTATTTTCATTATTCATCTCAAGTTTGTATTACTCCCTCCGTCCCATAAT
ATAAGAGCGTTTTTGACATTGTCACAATTAGTAGTATTGTTGATCTCACCAGCTGCTCATATATTGCTTCTCGCAGTGAA
GGACCTGTCGTCCATGCCAACCGGTGATTCCTCGTCTGAAAAGAAAGGATTACAGCAAGGGAGTAACATGAAGCTCGATG
CCGGGAAGACGAAGAAAGTTGAAAACGTCGGAGTGGAGGAGACACCTAAGGGATCTGCTGAACCAAGCTTCGGCAACCGG
GGGAGCCTTGGTGCTGAGTCTGATAAGGTGGCCGTGTTTGCTCGCCGTGGAGAACCACCCAAGCCTCACCCGAAAAAACA
CAACTAAGGCACCGTCCGGAATGGGTGAAATTTTTTGGTGACCATATATCAGCACTTAGCTCAAAGTTGAACTAACTACC
GGTGACCCTACAAGCTTTGCATCCAGT--CCAGCAGTCCCTAAGTATGTGTACATATAGTTAGCTAGCTAGCTTGCTTTT
TAGTTGATCTTGTTATATTTGTTATCTGATTTAGAGTAGTGGCAGTTCTCTTTCTTTCATG-------TGCCCCTCTCTA
GCTAGTTTCTGGGTGAAATTTTGGCTAGGAAACGGAGATCCGAGTATCCGACTACTCCACTGAGCATACTGTACTATAGC
TGCCTACTGTCAAATTAAATACCACACTTTTTCTATACATACACAGTTTATTCTTCTAC-TTTGAAGGGTCAATGCCTCA
ATGGATGCATTAAGCCAAAGGAAATCTTAACACATGTTCTC---TTTTTTTTTGGAAGTTTTTCTTA----ACACAAGAT
CGGATGGTCACAGTTGCAAAAGAAAAAAAAACGGCAAACCATACACAAAAAAATCTTACCATCTATTCACACAAAAAACA
CGTTTCTTTTTTGAAGGAAATCTTAACACACGAGTTCGAAACAATAAAATGTTCCATCTATTCAAAAAAAATCTTACCAT
CTATACACAAAGAAAATTTTAACACACATGTGTTACAAAAAGAACGCCAATAATTGGCCATCGTTCCCTAGGGAGCTGCT
CCCATTGAACATTTTCGTTCGCCAAGGGAGCAGCTCCCAGCGAATGATTCGACCAGCCCTCGATTGATCGCCAGGAGGAG
GCCCTGTGGCAAACCCCCATTGGGCTAGAAGCCCAGTTTTGCTACTTTTAAATGACATGAAAAAATACATATTTTCTTAT
TAAAAACAGAGAAAAGCATGAAATCATGAGCGCCATCGTATGGAAAGTACTAATACAAAAACATCCATGCTGTGAAAATA
AAAATAAAATATAAATATTTAAAAAATGCCACAAAAGTTGCCATGTCCTAATCAACACCCAAAA
>chr4D_1
TGGATTGACGTGGCACACCTGATCTTCTCTAAATTTCTGTGGATTTTCTCATCGGTCGAGAGAGGTCGTAGGATTTTATG
GCGGCTAAAAAAATAAAATGGGGTAAAA-TGTGTCACAAACTTGCCTAAATTGGGTATAAATGTGCATTCTGGGGGTAAA
AAATGGAATTCACTCTACTACGTACTCCTACTAAAAATGACCCACCGCCACCTTTG-CAGCTGCAGTGGTTACAAATTTG
CCCTTCCTCCTTTCTTCGTTGGAATTTGGGAACCGGCTTCTGTTAGATTCCTGAAACGCATAATTTTTAAAACTCTCTTA
ATTTGAAGGTTGATTGGATTCCTGAATGCTTAAATTTTAAAACTCACTGGAGGGTCGCA-------AGTTGCCTAGGAAC
AAAGGATCTTGGTCTTATGTGTGGCACGGGACCGGGAGATAG--------------------------------------
-----------------------------------------------ATCAAAGCGATGTGAAACTGGCGTTAAAATACT
GGCGCCGTGG--CGCACCGTCATACCT--TCTCGCCTGTGGCGCCGATGTGTCGGGAGTCCAACAGGGAGCTCTTTTTCT
GCAATTTAACTGCAGGGAGCTCGGATCCCCAAAGGCAGCCACTGCTTGGCACACCCCGACGGTCAGAAGCCACACGTGAT
GCATCAGCGC-----GTGCATGCTGCGTGGTCCTCTGAGCAGCTCTATATTTTGTACTAAAAAAGAGAGAAAGCTTACCC
TCGTAGGGCTTGTTAAACCACACCGGGTACGGATGGCGGCAGATGTTCTATACTTCTATATAACAG-T-TGTAAGAAATC
TGAGCTTTGACCGCCCAGCTAGCAGCTAGTCATCGATCTATATCTGACTACCAGTGTTTAAACTAACAAGCATTCTTCTA
TAAGAACCCAACAAGCCTCAGCCTCCCTCCTCTCTTCATCC-CCTTGC--CATCACCCCTTCACCAGCCCACCAAGATTT
ACCGGCCGTCGACAGTTAATTGGAGTTCACCATGACTACTGTCCGAGTTCTTCTTACAGTTGCCCTGGTCATCTCCCTGC
TCGCCCTTGGCCATCATCCTCTCGCTCATGCTCGCCACGGTGAGTCTAATTTTTCTTTCCTTA-----------------
----------------------------------TTGCATTCTTCATCTCAAGTTCGTACTACCATTTATTCA-------
--------------------GTCACAAGTAGTAGTATTGTTGATCTCACCAGCTGCTCATATGTTGCTTCTCGCAGTGAA
GGACC---CGTCCATACCAACCGGTGATTCCTCGTCTGTAAAGAAAGGATTACAGCAAGGGAGCAACATGAAGCTCGATG
CCGGGAAGACGAAGAAAGTTGAAAACGTGAGAGTGGAGGAGACACCAAAGGGATCTGTTGAACCAAGCTTTGGCAACCGG
GGGAGCCTTGGTGCTGAGTCTGATAAGGTGGCCGTGCTTGCTCGCCGTGGAGAACCACCCAAGCCTCACCCGAAAAAACA
CAACTAAGGCACTGTCCGGAATGGGTGAA-TTTTTTGGTGACCATATATCGGTACTTAGCTCAAAGTTGAACCAACTACC
GGTGACCCTACAAGCTTTGCATCCAGTGTCCAGCAGTCCCTAAGTATGTGTACATATAGTTAGCTAGCTAGTTTGCTTTT
TAGTTGATCTTGTTATATTTATTATCTGATTTAGAGCAGTGGTAGTTCTCTTTCTTGCATGTTTCCCCTGCCCCTCTCTA
GCTAGTTTCTAGGTGAAATTTTGGCTAGGAAACGGAGATCCGA-----------CTCCACTGAGCATACTGTACTATAGC
TGCCTACTGTCAAATTAAATACCACACTTTTTCCATATATACACATTTTATTCTTCTACTTTTGAAGGGTCAAA------
--GGATGCATTAAGCCAAAGGAAATTTTAACACGTGTTCCTCTTTTTTTTTTTGAAGTTTTTTCTTA----ACACAAGAT
CGGATGGTCACAGTTGCAAAA----AAA----GGCAAACTGTACACAAAAAAATCTTACCATCTATTCACAAAAA-----
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>chr4B_228
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--------------TTCGTTGGAATTTGGGAACCGGCCTCTGTTAGATTCCTGAAATGCACAGTTTTTTAAACTCTCTTT
CTTTGAAGGTTGGTTCGATTCCTGAATGCTTAACTTTTAAAACTCACTCGAGCTCGAGGGTTGCAGAGTTGCCTAGGAAC
ATATGATCTTGGTCTTATGCCTGGCCCGGGACAGTAGATG-G--------------------------------------
-----------------------------------------------ATCAAAGCGATGTGAAACTGGGATTAGAAAACT
GGCGCCGTGGCACGCACAGTCGTACCT--TCTCGCCTGTGGCGCCGATGTGTCGGGAGTCCAACA---------------
--------------GGGAGCTCGGATCCCAAGAGGGAGCCACTGCTTGGCACACCCCCACCGTCAGAAGCCACACGTTTT
TACGCATCAGTGCAAGTGCATGCTGCGTGGCCCTCTGAGCAGCTGCAGTAGT--------AAAAGAGAGAAAGCTTACAC
TCGTAGGGTTTGTTAAACAACACC-----------GCGGCAGATGTTCTGTACTTGTATATAACAG-TCTGTAAGAAATC
TGAGCTTTGACCACCCAGCTAGCAGCTAGTCTTCGATCTATATCTGACTACCAGTGTTTAAACTAACAAGCATTCTTCTA
TAAGAACCCAACAAGCCTCAGCCTTCCTCCTCTCTTCACACTCCTCTCCTCATCACCCCTTCACCAGCCCACCAAGATTT
ACCGGCCGTCGGCAGTTAATTGGAGTTCACCATGACTACTGTCCGAGTTCTTCTTACAGTTGCCCTGGTCATCTCCCTGC
TCGCCCTTGGCCATCATCCCCTCGCTCATGCTCGCCACGGTGAGTCTAATTTTTCGCTT---------------------
-----------------------------CTTATTTGCACTGTTCATCTCAAGTTTGTAGTAACATTTATTCA-------
--------------------GTCACAAGTAGTAGTGTTGTTGATCTCACCAGCTGCTCATATGTTGCTTCACGCAGTGAA
GGACC---CGTCCATGCCAACCGGTGATTCCTCGTCTGTAAAGAAAGGGTTACAGCAAGGGAGTACCATGAAGCTCGATG
CAGGGAAGACCAAGAAAGTTAAAAACGTGGGAGTGGAGGAGATACAAAAGGGATCTGCTGAACCAAGCTTTGGCAACCGG
GGGAGCCTTGGTGTTGAGTCTGATAAGGTGGCCGTGCTTGCTCGCCGTGGAGAACCACCCAAGCCTCACCCGAAAAAGCA
CAACTAAGGCACCGTCCGGAACGGGTGAA-TTTTTTGGTGACCATATATCAGTACTTAGCTCAAAGTTGAACTAACTACC
GGTGACCCTACAAGCTTTGCATCCAGT--CCAGCAGTCCCTAAGTATGTGTACATATAGTTAGCTAGCTAGTTTGCTTTT
TAGTTGAGCTTGTTATAGTTATTATCTGATTTTGAGTAGTGGTAGTTCTCTTTCTTTCATGTTTCCCCTACCCCTCTCTA
GCTAGTTTCTAGGTGAAATTTTGGCTAGGAAACGGAGATCCGA-----------CTCCACTGAGCATACTGTACTATAGC
TGCCTACTGTCAAATTAAATACCACACTTTTTCTATATATACACATTTTAGTCTTCTACTTTTGAAGGGTGAAA------
--GGATGCATTAAGCCAAAGGAAATCTTAAACAC-GTTCCTTTTTTTTCTTTTTGAGGTTTTTCTTTATGTACACAAGAT
CGGATGGTCACAGTTGCAAAA----AAAAAATGGCAAACTATACAC-AAAAAATCTTACCATCTATTCCCAAAA------
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>SNPs
-----S------------------------------S-------------------------------------------
----------------------------S------------S-----------S-----------S------S-------
-------------------------------------------------------SS--------------SS-------
--------------------------S----------------S-----------S--------------------S--S
S----------------------S----------S---------------------------------------------
---------------------S---S----------------SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS----------------------S----------
---------------------------SS------------------------------------S------------S-
--------------------------------------------------------------------------------
-----------------------------------------------S--------------S-----------------
---------------------S--------------------------------------------S-------------
---------------------------------------S----------------------------------------
-----S-------------S-------------------S------------------------------S---------
-------------------------------------------------------S------------------------
----------------------S--------S-----S---------S---------------SSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSS-------S----S-----------------S---SSSS-SSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSS-------S----------------------------------S-----------------
-----SSS------------------------------S-----------------------------------------
----------------------------S-----------------S-----------------------S---------
------------------------------------S-------------------------------------------
-----------------------------S----------------------S---------------------------
-----------------------------------------------------------------------S--------
--------------------S---------------------S-------------------------------------
----------S--------------------------------SSSSSSSSSSS--------------------------
-------------------------------------S-------S---------------------------SSSSSSS
SS-------------------------------S-----SS---------------S-----------------------
---------------------SSSS------S-------S-------------------------------S---SSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
>forward_980
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TAAGAGCCCAACAAGCCTCG------------------------------------------------------------
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>reverse_2382
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-------------------------------------------------------------GATTGATCGCCAGGAGGAG
G-------------------------------------------------------------------------------
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