>input_sequence_83631
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-------------------ATGGCCGCCGCGCCCGCCGTCCTCCTCCTCGTCCTGCTCCTCCTCGTCGCCACGGGTACGC
CCGTCCGTCCGTCCATGGATAGTAGT-----------AATGAGCATCTCTACTCACCGGCCGGCACTTACTTATTGAGTT
ATTGGACTGTGGTTGCATTGCAGAGATGGGGACGATGAAGACGGCGGAGGCCCGGACGTGCCTGTCGCAGAGCCACAAGT
TCAAGGGCACCTGCCTCAGCAACAGCAACTGCGCCGGCGTGTGCCGCACCGAGAACTTCCCCGACGGCGAGTGCAACTCC
CACCGCCTCGAGCGCAAGTGCTTCTGCAAGCGCACCTGCTAA--------------------------------------
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>chr1B_1_TraesCS1B01G017700
AGCGTTTAGATCACTGAAACACTCATATTTTTCTTTACAGAAGAAATACTTTAGTATTAGCGAATATTACATATAGATGG
TTTGGGGCAGATCATATGGATTGCCTATGCACAACCGTTGGTGCAGATCATAC----ACTACTGATTCGGAACGAGTGCG
ATCTGCCCATGGCCACAGCTGACGGGGTGGCAACCTTATCCAGGTCTATCTGCTTGTCGTCCTGCCGATCGATCCCCTCA
GCAGGGTCTGCTGGCTCTGGGC-------TCTCATCGCAAGAAGTGACTAGGCGTGTAAAATGTAAGCAAAGTTGGCAGA
AAGCAATGAATCCAGC----------GCAGGCAAAAGCATCGCCATTCACTGCTCTGCCGACGAGCTCCACTCACTCAGT
CGTAGCCCGGCCGTAGGCCCCTGGCCGGCTTGAGCAAGCACATGTCGACATCGAGTGAATTATTGGAGACCCCT------
GCTCTGCTGCCATGGCAACGTACATGGA--------------ATTGATATCTCCCACCCACCNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNAACTCCTGCATCGTCTT------GTATCTACACCACCTTGGCATTGCTAGACAGGACAGCCTATATTGACGTAGAC
GCAGCAGGAGCAGCAGCAGCGAACTCTGTCAGTTCTCTA----GCATCTCCG--GTGAAGCAAGCAAGCAGAGAGA----
--TGGCGTCCCCTCGTCGCATGGCCGCCGCGCCCGCCGTCCTCCTCCTCGTCCTGCTCCTCCTCGTCGCCACGGGTACGC
CCGTCCGTCCGTCCATGGATAGTAGT-----------AATGAGCATCTCTACTCACCGGCCGGCACTTACTTATTGAGTT
ATTGGACTGTGGTTGCATTGCAGAGATGGGGACGATGAAGACGGCGGAGGCCCGGACGTGCCTGTCGCAGAGCCACAAGT
TCAAGGGCACCTGCCTCAGCAACAGCAACTGCGCCGGCGTGTGCCGCACCGAGAACTTCCCCGACGGCGAGTGCAACTCC
CACCGCCTCGAGCGCAAGTGCTTCTGCAAGCGCACCTGCTAAGCAAGCCCAGTCCGCGCTACTGGC-----TCTGGCTAG
CTAGACTGCTAGATC---AGCAGCCAT----GCCGTCAGTTAGATCTGTTCGTCCCTACTTTTGTTTCCG---TTTGCTT
TACGTTGCTCTTGGGGATGACTGAAAATAAAGTAGCTACCTACATCCTCTGCATTGGCTGTTCCACTGCATGT----TGT
CTAAGTGTTTCTGGCTTTAGTTTGTGCTGTTGATGTAATAACGATGCCACTAACAATTTGGCTTCTATGTGTTGTGTTGA
AACTTGGAATCAATCGGTTATTAGTTGGCTTGTCTGTTAAACGGAGTAAACAATTGTTTTATTG----TTTCTTTTTTTA
TGAGAGAAACGGAGCAAGCATT-TTCATGTAGCAAAACAAACTTCCCAAGTTTCACAGCTATATTAACTCGACGTGCATG
AATGGCTCTGTTTTTTAACATACAAGTTAAAAAAAATTAAATACATGTACAAACATTTTTCAAATACACATAGAGTTTTG
TTTAATGGTACAGAAGTTTTTTTACATTGTATAAACTTTTTTTGCAAATACCTGTTTGAATTGTTTTTCAAATACATGCA
AAAGATTTTTTTTTAATACACGACGAACACATTTTTCAAATGCATGTTCAA---------------------TTTTTTCT
AATGGTACCAAATATTTCCTGGAAACATTGTTTACAGTGTATAAACATTTTTTATAAAATTTCCTTAACATATTTTTGAA
ATCATGAGAACATTTTTTCAGATGTCACAAACATTTTTAA------TTAAAAAAATATGTTCTAAAATTACGCAAAAGAA
TAAATTGTATAAATATTATTTAAAAATTTCATGAACATTCTTTGAACACCTGAACATTTTTAAATGTTATGGATATTTTT
TTCTGAATAGTACAAACATTTTATGATAGTTCACCATTGATGTTGCACATGTCCAGAGTATAGATAATTCTTCTGACACA
AAGAAATGTTGCAGATGCACCGCTAATACATATATTTATGACAAGAGGAAATA
>chr1A_52
---------------------------------------------------TAATATTAGCGAATATCACTTA--GATGG
TTTGGAGCGGATCATATGGATTGCCTATGTACAACTGTTGCAGCCGATCATGCACGTACTACTGATTCGGAGCGAGTGCG
ATCCGCCCATGGCCACAGCTGAGGGGGTGG---------------CTATCTGCTTGTCGTTAGCATGGTCCCAAC-----
---GGGTCTGCTGGCTCCGGGCTCTCATGTCTCATCGCAAGAAGTGACTAGGCGGGTAAAA--TAAGTAAAGTTGGCAGA
AAGCAATGAATCCAGCGGTCAGCGTGGCAGGGAAAAGCATCGGCGTTCACTGCTGTGCCGACGAGCTCCACTCACTCAGC
CGTAGCCCGGCCGGCC--------------TGAGCAAGCACATGTCGGCATCGAGTGAATTATTGGAGACA---------
--CCTGCTGCCATGGCAACGT----GGA--------------ATTGATATCTCCCGCCCACCACCACTAATATCTACCTA
CCGTACCCCTCTCTCGCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTGCCTATATA-----------
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----AACCCCTGCCTCTTCTT------GTGTCTGCACCACCTTCGCATTGCTAG---------CCCCACGTAGAC-----
---------GCAGCAGCAGCGAGCTCTGTCGGTTCTCTATCTAGCATCTCCGGTGTGAAGCGAGCAAGCAGAGAGAGAGA
GATGGCGTCCACTCGTCGCATGGCTGCCGCGCCGGCCGTCCTCCTTC---TCCTCCTCCTGCTCGTCGCCACAGGTACGC
CCGCCCATCCATGGTTCCTGACTCC--------------TGACCATCTGTGCTCAGCGATACTTAA-TAATTACTTG---
------CTGTGGTTGCATTGCAGAGATGGGGACGATGAAGACGGCGGAGGCCCGGACGTGCCTGTCGCAGAGCCACAAGT
TCAAGGGCACCTGCCTCAGCAACAGCAACTGCGCCGCCGTGTGCCGCACCGAGAACTTCCCCGACGGCGAGTGCAACACG
CACCTCGTCGAGCGCAAGTGCTACTGCAAGCGGACCTGCTAAGCAACACCAGTCCGCGCGACGTCC-----TCCGGTGGA
TGCTTGCTACTGGGCTAGAGCATCCAT----GCCGTCCCTTAGATCTGTTCGTCCCTACTCCGTCTATTTCCATTTCCTT
TACGTTGCTCCTAGGGATGACTGAAAATAAAGTAGCTACCTGCACCCTCGGCATTGGCTGTTCGTCTGCATGTATGCTGT
TTAAGTGTTCGTGGCTTTAGTTTGTGCTGTTGATGTAATAACGATGCCACTGACAATTTGGCTTCTATGTCTTGTGTTGG
AACTTTGAATCAGCAGG---TTTGTTGGCTTGTCTGTTAAACGGAGCGAACACTTTTTTTCTGTTTCTTTTTTTTTTCTG
CGAGAGAAACAGAGCAAAAAAAATTCATGTAGCGAAACGAATTTCCCAAGCTTCTCAACTATTTTAACTTGACGTGCATG
AATGGCTCTGTTTTTTAACATACAAGTTAAAAAAATTCAAATACATGTATGAACATTTTTCAAATACACATAGAGTTTCG
TTTAATGGTA----AGTTTTTTTACACTATATAAACATTTTTT-CAAATAAATGTTCGAATTGTTTTTTAAATACA----
--------------------CGTTGAACATAGTTTTCAAGTACATGTCAAAGAATTCGAAGACACATTGGATTTTTTTCT
AATGGTACCAAATATTTTGT--AAAGATTGTTTGCACCGTATAATCATTTTTTATAAAGTTTATCTAACATATTTTTTAA
ATCATGAGAACATTTTTTCTAATGTCACAAAACATTTGTTTGAATTTTACAAAACAATGTTTTTAAATTAC---------
---ATTGTATAAATATTCTGTAAAAAAATCATGAACATTCTTTGAACAGCTGAAAAAAAAATGAGTCACGGACAATGTTT
CTCTGAATAGTACCAATATTTATGAT--GTTCACCGTTGATGTTGCACAGGCCCAGACTATGCATAACTCTTCTTAGACA
GAGAAATGTTGCAGATGCACCACTATAAT-TATATTTATGACAAGTGGAAA--
>chr1A_325
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---------------C----------GCAGGCAAAAGCATCGGCATTCAGTGCTCTGCCGACGAGCTCCACTCACTCAGC
CGTGGCCCTGACGTCAGC------------------AGCAGATGTCGGCAGGCATGCATGCGATCGACCGGACAGCCCTG
GCCCTGCTGCCATGGCAAGAT----GGATGCATGCGATCTAGATTAATATATCCCACCAACCACCACTAATCTCTACTCT
ACA------------------------------------------------TCTCTCTCTGGCTATATA-----------
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----AACCCCTGCCTCGTCTTCTAGTTGTATCCACGCCACCTTGGCTTTGCTAGACAAGACAGCCCCACGTAGT------
--AGCAGCAGCAGCAGCGGAGAGCGCGGTCGGTTCTCTA----GCATCTCCG--GTGAAGCGAGCAAGCAGAGAGA----
--TGGCGTCCCGTCGTCCCATGGCCGCCGCGCCTGCCGTCCTCCTCC---TCCTGCTCCTGCTCGTCGCCACAGGTACGT
CCGACCGTCGGCAGTGTGCTTCTTACTTCCCAGTGAGAAGATGCATGCATGGACGGTGACCGGTGCTTAATTACTATGCT
TCGTCGTGTGCA------TGCAGAGATGGGGACGACGAAGGTGGCAGAGGCCCGGACGTGCCTGTCGCAGAGCCACAAGT
TCAAGGGCACCTGCCTCAGCGACAGCAACTGCGCCGGCGTGTGCCGCACTGAGAACTTCCCCGACGGCGAGTGCAACTCC
CACCGCCTCGAGCGCAAGTGCTTCTGCAAGCGGACCTGCTAAGCAAGACCAGTCCGCGCGACATCATCCGATCCGACGGA
TGCTACTT-----GCCAGAGCATCTATGCCCGCCGTCAGTTAGATCTGTTCGTCCCTACATTTCTTTCACGT--------
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>SNPs
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS--S-------------S--S--SS-----
-----S--S--------------------S-----S----SS--S------S-------------------S--------
---S------------------S-------SSSSSSSSSSSSSSS---------------SSSSSS-S--SSSS-SSSSS
SSS--------------S------------------------------------S------SS----S------------
------------------------------------------S------------------------------------S
--------------SS--SSSSSSSSSSSS-----------------S----------------------SS-S------
--S------------------SSSS-------------------------------------SSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSS---S-----S-------------------------------------------S-------SSSSS-SSSSSSSSS
SS-----S--------------S-------S------------------------------S------------------
---------------------------------S-------------SSS----------S-----------S-------
---S--------SSS-S-S--S-SSS----------------------S-S----S--S----S-----S---S-SS-S-
SSSSSS--------------------------------------------------------------------------
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--------------------------------S--------------S-----------S--SSS--------S---SSS
SSSS---SSSS-SS--------S----------------------------------------S----SS------S---
----------S-S----------------------------S--S----S-------------SS---------------
S--------SS----------------------------------------S------------------S--------S
-----S------SSS--SSS--S-----------------------SS----S--S----S-SS-------S-----S-S
S---------S------SS-SS-----------S----S--S--------S---S--S----S------S----------
-----------------------------------S-S-----------SS---------------------------S-
----------SSSS------------S-S-------S------S------SS----S-----------S-------SSSS
SSSSSSSSSSSSSSSSSSSS--SS-----S-S-------S-S-----SS-------------------------------
-----------------SS-SS---S-------S--SS------S-------------S---SSS------------S--
-------------------SS----------SSS---SSS---------S----SS-----S-S-------SSSSSSSSS
SSS--------------S-S------SS--------------------S-----S-SSSSSSS-SSSSSS-SSS--S---
S------------S--S----SSSSSSS-------S-------------S-S-----S---SS----S------S-S---
S--------------------S---SS-SS---------------S-----SS
>forward_226
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----------------------------------------------TATCTGCTTGTCGTCCTGCC--------------
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>reverse_1425
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----------------------------------------------------------------GCTCTGGCTAGCTAGA
CTGC----------------------------------------------------------------------------
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