>input_sequence_85102
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ATGTCGAGCCTGATAGATATTTGGACGGTGGAGGTGGACAGGATCCGGGCCATGAGGAGAACGGGGGGGCCGTTCAGACC
CACGGCTTCTCCC---------GGCGCACAAGAAGCCGGCCACGTAGCTCGGCCGTCCGGGTCCGGCGACGGAAATGGAA
CGCCAACACCTGATGGTGCCACGGCTTGGCCGGCCAGGGATCAGGCT------GCCGGCGCTGGCTCGCCGTCGTCGCCG
GTGCTCGTCCGGGAGGACGCCTTCTTGTCCATCCTGGTCGATTGCTTCGGTCAGTAG-----------------------
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>chr5A_1_TraesCS5A01G402900
CAACATACAACC-AAGGAACAAGCCAGGTAGTATGTTTTTGACCTAATTTTATATTTTAGTGGTCATTT-GATGTCTTGT
TGTCTTTTCATTGTACCATGTATTTTCTCCTTGATAATTGACAGATATAA-GATATTTTTTGGGTGTCTTTTTCTCAAAG
GAGAATATATCAGCTTGGATGGATCAT-AAAAATCTCATTCAAAAAAGAGAACC-----TTGCCAGCTTGTGGTAAGTTT
GTACT---------------------------------------------------------------------------
----------------------------------------------------------------------------ACTA
GCAGTCGATCAGTACAAATACCAG-AAAAAGCAGTCATCAGCTAGCCTGATAAACGTGCTACCAGACTACCACACCAGTA
GGACCTGCCATGGTTGGCTAGCTCGGCTTCAGCTTGGAACATG-------------------------------------
----------------AAGG-CACCAC-AAAAACTGCACAGAGAACAGCATAATTCACACAGTTACAAG--AAATTACCG
CCTTGTAGAAAGATTCTAGACAGAGAGTTGGCGTTCGTAAGCAGCG----------------AGAGTCAATTTCAGCAGC
AGGAGCGATGGCAACAGCAGAA--------CGGTCCCCCCGATATACTTCCGTAGTTGTCGCAGTCAGAT--------AG
CCCACGGTACCGCCGCGACTCCACCCACGGT-AATGCCCAACGGCCTGCCCCCGCTGGCCCGCTGCGCCCACCATCAATC
AATCAGAAACAAACACGTATTCTC---------------AAGCGGCGACCTCCTCCCGCTCCCGTGGGCGCGCGCTTCCA
GAGCGACAAGAACATTCCTCTAAAAAAAGTGACAAAGCTGCGATCCTGTGTGCTGAAGCACCAAGTATCCCCTGGTTCCA
GCAGACTCCAAGAGCCATTCCAGGCCATGGCGCCTCCGCAGAGCTCCTCGATTGGTCCATCGTTGCCTATT-TTTATCAG
CACATGC--AG----------CCTCTATAAAATCGCATCGCTCTTGCTGCCCACTCGCACTGAAGATCTCCCCGATCGAT
CCTCGCATTCAGCTTGTCACTCTCTGTCTCTCTTGTAGCTCGGCTCAGTTGT-CTGTTCCCTGCAAGCCGCGGCCGACCC
ATGTCGAGCCTGATAGATATTTGGACGGTGGAGGTGGACAGGATCCGGGCCATGAGGAGAACGGGGGGGCCGTTCAGACC
CACGGCTTCTCCC---------GGCGCACAAGAAGCCGGCCACGTAGCTCGGCCGTCCGGGTCCGGCGACGGAAATGGAA
CGCCAACACCTGATGGTGCCACGGCTTGGCCGGCCAGGGATCAGGCT------GCCGGCGCTGGCTCGCCGTCGTCGCCG
GTGCTCGTCCGGGAGGACGCCTTCTTGTCCATCCTGGTCGATTGCTTCGGTCAGTAGATTGCAC----CGAGCGCTTGAA
CATGTAGCAACACGTTCCTGAGCTCTAGCTAGATGCGGTGCAACTAAAGTGTCTTTCGTGATTGCTGTAGCCTGCTGAAT
TATCAAGTTCGGCGCCTTCTGAATGTCTCTGTTACAGTACAA----------ATCTCTTCTCCAGTCAGGTCCGTTTTCA
TGATGGTCCCTGGATGGGAAAAAAGTTCGTTTTCGTGGGTACGAGTACGATCGATCGAGACGGTGCAGCCAAGTGGGAGG
GGAGATGTAATTCATTACCACCACTCGGGCGGCTGAAGTAGTAGCGA---------------------------------
---------------------------------------------------------------AATATCTCTCTTCGCCG
AGATATTTTGCTTCAAAATTGTTG--------------------------------------------------------
--------------------------CCATGCATACTGAACGTTTTCTCTGAACCTCAACGTTCCAGTTGCTCCTGCACC
TCGCAAAACGTT-CGACCTCTGGCGCGGCCCGCGATCCGGA------GCATAAACCTTGCTCAGATTCTTCGATTCCCCG
GATCAAATGCTACGTCCGGGTGGTGCGG--------CGAACCTGGATGGCAGAACCATGCGGGCACGGGGCGCGGTGAGC
ACGTACGTGAGGGCGATGGTCCGCGTCGCCGGCCGCTGCACTTGCACCCGCCCCAGGG-CAGTCAATAGTCAC--CGCGC
GCGCAGCATCCTGGCAGCGGCATCTCTCCCCGGATCCGCCCGCGCGCCGAATCAATGGTACGCGCGAGGATATCCCCTCC
CCTCTCCACCGCGCGCGCGACGGCAGCCTCACGTTCATTAGCTTGGCCTCCGATCGCGCGTCGCGCCGCGCCGTGCGTCA
CATGGCAAATGCACGGCACGGCATGGGCCTGCGCCCCAACGGACAAAGCCGATGAGCTGTGGCCGCTCGCCCGCCACTCG
GCGGCACCCAAACAAAACACCGGCCCGAGGAGGCGCCTACCGTTCCGCCCCGCGCGCAGTTTCCTCCACTTTTCCCACCG
GCAGTGGCAGGCAGCTCGCGAGTGCAT---GCCAATAGCCGGTGCCTTCCTTCACACCTGCGAGCTGTAT
>chr5B_1
CAACATACAATCGAATGAACAAGCAGTGTGGTATGTTTTTGATGTAATTTTATATTTTAGTGAGCATTTTCATGTCTTGT
TGTCATTTCATTGTACCATGTATTTTCTCCTTGATAATTGGCAGATATAA-GATAA-TTTTGGGTGTCTTTTTCTCAAGG
GAAAAAAAATATCAGCT--TGGACCAT-AAAAATCTCAGACAAAAAAGAGAAGAGAACATTGCCAGCTT-----------
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---------------------------------------------------------------GTGGTAAGTCTGTACTA
GCAGTCGGTCAATACAAATACCAC--AAAAGCAGTCATCAGCTTGCTTGATAAACGAGCTACCAGTCTACCACACCAGTA
GGACCTGCCATGGTTGGCTAGCTCGGC-TCAGCTTGGAACATG-------------------------------------
----------------AAAA-CACCACAAAAAACTGCACAGAGGACAGCATAATTCACACAGTTACAA--AAAATTACCG
CCTTGTAGAAATATTCTAGACAGAG--TTGGCGTTCGTAAGCAGAGACATGAGGAGGCAGCCAGAGTCAATTTCAGCAGC
AGGAGCGATGGCAACAGCAGAAGTGCAGAACGGTCCCCTTGATATACCTCCGTAGTTGTCGCCGTCAGACTATCAGAGAG
CCCACGGTACCGCCGCGACTCCACCCACGGT-A-TGCCCAACGGCCTGCCGCCGCTGGCCCGCTGCGCCTACCA------
--TCAGAAAAAAACACGTACTGTCATTCGGAGCACGATCAAGCGGCGACCTCCTCCCGCTCCCGTGGGCGCGCGCTTCCA
GATCGACAAGAACATTCCTCTAAAAAAAGTAGCAAAGCTTCAATCCTGTGTGCTGAAGCACCAAGTATCCCCTGATTCCA
ACAGACTCCAAGAGCCATTCCAGGCCATGGCGCCTCTGTATGTACTCC----------------------TATTTATCTG
CACATGC--AGCCTGCAGGCACCTCTATAAAATCGCATCGCCCTTGCTGCCCACTCACACTGAAGATCTCCCTGATCGAT
CCTCGCATTCAGCTCGTCGCTCTCTGTCTCTCTTGCAGCTCGGCTCAGTTGTTCTGTTCCCTGCGAGCCGCGACCGATCC
ATGTCGAGCCTGATAGATATTTGGACGGTGGAGGTGGACAGGATTCGGGCCACGAGGAGAGCGGGGGAGCCGTTCAGACC
CACGGCTTCGCCC---------GGCGCACAAGAAGGCGGCCACGTAGCTCAGCCGTCCG------GCGACGGAAATGGAA
CGCCAACAGCTGATGGTGTCATGGCTTGGCCGGCCAGGGATCAGGCTGCCGGCGCTGGCGCTGGCTCGCCGTCGTCGCCG
GTGCTCGTCCGGGAGGACGCCTTCTTGTCCATCCTGGTCGATTGCTTCGGTCAGTAGATTGCAC----CGAACGCT----
-ATGCAGCAACACGTTCCTAAGCTCTAGCTAGGTGCAATGCAACTAAAGTGTCTTTCGCGATTGCTGTAGCCTGCTGAAT
TATCAAGTTCGGCGCCTTCTGAATGTCTCTGTTACAATACAAATCAACGCCTATCTCTTCTCCAGTCAAGTCCGTTTTCA
TGATGGTCCCTAGAGGGAAAAAAAGTTCATTTTCATGGGCAT--GTACGATCGATGGAGACGGTGCGGCCAAGTGGGAGG
GGAGCTATAATTCATTACCACCACTCGGGCGGCTAAAGTAGTAGCGAAATATCTCTCTTCACTGAGATATTTTTGCTTCT
TATACGTT------------------TTTGGAACGGACGGGAAACTCAAGCTTGACATAAAGAAATATCTCACTTCGCTG
AGATATTTTGCTTCAATTCTTACCAGAAACTCAGACATGAAGTACAGAAGATGCATCGTGTGTTAGCCAGTGC-AACGTT
TTCTCTGAAGTCTGAACTTCACCTGCCCATGCATACTGAAAGTTTTCTCTGAACCTCAACGTTCCCGCTGCTGCTGCACC
TCACAAAACGTTCCGATCTCTGGCGCGCCCCGCCATCGGC------GGCATAAACCTTGCTCAGATTCTTCGATTCCCCG
GATCAAATACTACGTCCGGGTGGTGCAG--------CGAACCTGGACTGCACAACCATGCGAGCACGGGGCGCGGTGAGC
ACGTACGTGAGGGCGACGGTCCGCATCGCCGGCCGCTGCACTTGCACCCGCCCCCGGG-CAGTCAGTGGTCACCGCGCGC
GCGCAGCATCCTGGCAGCGGCATCTCTCTCCGGATCCGCCCGCGCGCGGAATCAATCGTACGCGCGAGGATATCC-----
CCTCTCCACCGCGCGCGCGACGGCAGCCTCACGTTCATTAGCTTGGCCTCCGATCGCGCGTCGCGCCGCGCCGTGCGTCA
CATGGCAAATGCACGGCACGGCATGGGCCTGCGCCGCAACGGACAAAGCCGATGAGCTGTGGCCGCTCGCCCGCCACTCG
GCGGCACCCAAACAAAACACCGGCCCGAGGAGGCGCCTACCATTCGGCCCCGCGCGCAGTTTCCTCCACTTTTCCCACTG
GCAG-------CAGCTCGCGAGTGCCG---GCCGATT---GGTGCCTTCCTTCACACCTGCGAGTTGTAT
>chr5D_1
CAACATACAATCGAATGAACAAGCAGTGTAGTATGTTTTTGATGTAATTTTATATTTTAGTGGGCATTT-CATGTCTTGT
TGTCTTTTCATTGTACCATCTATTTTCTCCTTGATAATTGACAGATATAAAGATAGTTTTTGGTTGTCTTTTTCTCAAAA
GG-AAAGAATATCACCT--TGGATCATAAAAAATCTCAGACAAAAAAGAGAACC-----TTGCCATCTCGTGGGAAAAAA
ATTATATGAGACCAGGTCTCACGGTTAGCAGGTGAGACCTGCCCTGATGGATGACACGTGGCATTCATAAATCACAAAGC
ATCTAATCTCTCCCTCCCTGATTTTAAGTGGGGGTGGGGGTAGATGCTTTGTGACTCCATCTCGTGGTAAGTTTGCACTA
GCAGTCGATCAATACAAATACCACAAAAAAGCAGTCATCAGCTAGCTTGGTAAACATGCTACCAGTCTACCACACCCGTA
GGACCTGCCATGGTTGGCTCTCTTTTTTTAACAAAGCAAGGCACCTAGAAGGTGCCCAATTTCCATTGACAGCTTAAAGA
GTCATTACAAAGTTACAAAAACATCAC-AAAAACTGCACAGAGAACAGCATAATTCACACAGTTACAAAAAAAATTACCG
CCTTGTAGAAAGATTCTAGACAGAG--TTGGCGTTCGTAAGCAGAGACATGAGGAGGCAGCCAGAGTCAATTTCAGCAGC
AGGAGCGATGGCAACAGCAGAA--------CGGTCCCCCTGATATACCTCCGTAGTTGTCGCAGTCAGAT--------AG
CCCACGGTACCGCCTT---TCCACCCACGGTAA-TGCCCAACTGCCCGCCGCCGCTGCCCCGCTGCGCCTACCATCAATC
AATCAGAGAAAAACACGTGTTATCAGTCGGAGCACAATCAAGCGGCGAC-------------------------CTTCCA
GAGCGACAAGAACATTCCTCTAAAAAAAGTGAAAAAGCTGCAATCCTGTGTGCTGAAGCACCAAGTATACCCTGAATCCA
ACAAACTCCAAGAGCCATTCCAGGCCATGGCGCCTCTGCAGAGCTCCTCAACTAGTCAATCG-TGCCTAGTATTTATCTG
CACATGGAGAGCCCGCAGGCACCTCTATAAAAGTGCATCGCCCTTGCTGCCCACGCACACTGAAGATCTCCCCGATCGAT
CCTCGCATTCAGCTTGTCACTCTCTGTCTCTCTTGTAGCTCGGCTCAGTTGTTCTGTTCCCTGCAAGCCGCGACCGATCC
ATGTCGAGCCTGATAGATATTTGGACGGTGGAGGTGGACAGGATCCGGGCCATGAGGAGAACGGTGGAGCCGTTCAGACC
CACGGCTTCGCCC---------GGCGCACAAGAAGCCGGCCACGTAGCTCAGCCGTCCG------GCGACGGA-------
--------------------------------GCCAAGGATCAGGCT------GCTGGTGCTGGCTCGCCGGCGTCGCCG
GTGCTCGTCCGGGAGGACGCCTTCTTGTCCATCCTGGTTGATTGTTTCGGTCAGTAGATTGCACCGGTCGAACGCT----
-ATGCAGCAACACGTTCCTAAGCTCTAGCTAGGTGCAACGCAACTGAAGTGTCTTTCGTGATTGCTGTAGCCTGCTGAAT
TATCAAGTTCGGCGGCTTCTGAATGTCTCTGTTACAATACAAATCAACGCCTATC-----TCCAGTCAGGTCCGTTTTCA
TGATGGTCCCTAGACGGAAAAAAAGTTCATTTTCATGTGTAT--GTACGATCGATCGGGACGGTGCAACCAAGTGGGAGG
GAGATGTG-ATTCATTACCACCACTCGGGCGGCTAAAGTAGTAGCGAAATATCTCTCTTCATTGAGATATTTTTGCTTCT
TATACATTACCAAGAAGTCGGAGGTTTTTGGAACGGACGAGAAACTCAAACTTGACATAAAGAAATATCTCGTTTCACTG
AGATATTTTGCTTCAATTCTTACCAGAAACTAAGACATGAAGTACAGAAGTTGCATCGTGTGTTAGCCAGTGCAAACGTT
TTCTCTCATGTCTGAACTTCACCTGCCCATGCATACTGAACGTTTTCTCTGAACCTCAACGTTCCCGCTGCTGCTGCACC
TCACAAAACGTTCCGACCTCTGGCGCGCTCCGCGGACCGCGGATCGGGCATAAACCTTGGTCAGATTCTTCGATCCCCCG
GATCAAATACTACGTCCGCGTGGTGCAGGCGTGCAGCGAACCTGGACGGCACAACCATGCGGGCACGGGGCGCGGTGAGC
ACGTACGTGAGGGCGACGGTCCGCGTCGCCGGCCGCTGCACTTGCACCCGCCCCCGGGGCAGCCAGTAGTCAC--CGCGC
GCGCAGCATCCTGGCAGCGGCATCTCTCTCCGGATCCGCCCGCGCGCGGAATCAATCGTACGCGCGAGGATATCC-----
CCTCTCCACCGCGCGCGCGACGGCAGCCTCACGTTCATTAGCTTGGCCTCCGATCGCGCGTCTCGCCGCGCCGTGCGTCA
CATGGCAAATGCACGGCGCGGCATGGGCCTGCGCCGCAACGGACAAAGCCGATAAGCTGTGGCCGCTCGCCCGCCACTCG
GCGGCACCCAAACAAAACACCGGCCCGACGTGGACCA--------GGCCCCGCGCGCAGTTTCCTCCACTTTTCCCACTG
GCAG-------CAGCTCGCGAGTCGTGAGTGCCAATG---GGTGCCTTCCTTCACACCTGCGAGCTGTAT
>chr3B_357
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-------------------------------------AACATG-------------------------------------
----------------AAAAACACCAC-AAAAACTGCACAGAGAACAGCATAATTCACACTGTTAC--AAAAAATTACCG
CCTTGTTGAAAGATTCTAGATAGAG--TTGGCGTTCGTAAGCAGAGACATGAGGAGGCAGCCAGAGTCAATTTCAGCAGC
AGTAGCGATGGCAACAGCAAG--------ACGGTCCCCGTGATATACCTCCGTAGTTGTCGCCGTCAGACTGTCAGAGAG
CCCACGGTACCGCCGCGACTCCACCCACGGT-A-TGCCCAACGGCCTGCCGCCGCTGGCCCGCCGCGCCCACCATCAATC
AATCAGAACAAAACACGTATTC-CAGTAGGAGCACGATCAAGCG------------------------------------
--GCGACAAGAACATTCCTCTACAAAAAGTGACAAAGCTGCAATCCTGTGTGCTGAAGCACCAAGTATCCCTTCGTTCCA
GCAGACTCCAAGAGCCATTCCAGGCCATGGCGCCTCTGCGGAGCTCCTCGATTAGTCAATCG-TGCCTATT-TTTATCTG
TACATGT--AGCCTGCAGGCACCTCTATAAAATCTCATCGCCCTTGCTGCCCACTCACACTGAAGATCTCCCCGAGCGAT
CCTCGCATTCAGCTTGTCACTCT--GTCTTTCTTGTAGCTCGGCTCAGTTGT-CTGTTCCCTGCAAGCCGCGACCGATCC
ATGTCGAGCCTGATAGATATTTGG-CGGTGGAGGTGGACAGGATCCGGGCCATGTGGAGAACGGGGGAGTCGTTCAGACC
GACGGCTTTGCCCGGCCGCGCAGGCGCACAAGAAGGCGGCCACGTAGCTCAGCCGTCCG------GCGACGGAAATGGAA
CGCCAACACCTGATGGTGCCATGGCTTGGCCGGCCAAGGATCAGGCT------GCTGGCGCTGGCTCGCCGTCGTCGCCG
GTGTTCGTCCGGGAGGACGCCTTCTTGTCCATCCTGGTTGATTGTTTCGGCCAGTAGATTGCACCG----AACGCT----
-ACGCAGTAACACGCTCCTAAGCTCTAGCTAGATGCAATGCAATTAAAGTTTCTTTCGTGATTGCTGTAGCCTGCTGAAT
TATCAAATTCGGCGCCTTCTGAATGTCTCTGTTACAATACAAATCAACGCCTATC-----TCCAGTCAGGTCAGTTTTCA
TGATGGTCCCT---------------------------------------------------------------------
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>SNPs
----------S----S--------SSS---------------SS-------------------S------S---------
-------------------------------------------------------S------------------------
--S--S-S--SSSSSSSSS-------------------SS---------------------------------S--SSSS
S-SS----------------------------------------------------------------------------
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-----------S-----------S----------------------S------------------S--------------
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------------------SS------------------------------------------------S-----------
-------------------------SS-----------------S-----------------------------------
---------------------------------------S-------S--------------------------------
---------------------------------S----------------S-----------------------------
---------S----------------------------------------------------------------------
-----------------------------------------S--------------------------------------
------------------------------------S----------------S---S----S---------------S-
-----------------------------------------S--------------S-----------------------
------------------------------------------------------------------------S----S--
-------------------------------------------------------------------S------------
---------S----------------------------------------S--------SSSSSS---------------
---------------------S---------------------------------S------------------------
-----------------------------------------------------------------------S----SSSS
S---S--------------S----------------SS------------------------------------------
------------------------------------S-------------------------------------------
-----------S--S--S----------S-----S------SSS------------------------------------
----S-S---------------------------S---------------------------------------------
-----------------------------------------------------------------------S------S-
----------------SSS-SSSS--------------------------------------------------------
-----------------------------------------------------------------S-S----S-------
--S------------------------S-----------SS---------------------------------------
--------S-----------------S-------------------S----S----------------------------
----------------S-------------------------------------S----------S--------------
----------------------------S------------------S--------S------------------SSSSS
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-----------------------------------S--------------------------------------------
-----------------------------------------S---S--------------------------------S-
----SSSSSSS--------------SS---------SSSS------------------------------
>forward_1098
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--------------------------------------CAGAGCTCCTCGATTGGTCC----------------------
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>reverse_2163
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--GCAAAACGTTCGACCTCTGG----------------------------------------------------------
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