>input_sequence_76092
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--------------------ATGCAAATGCTGCCGGAGACGAGGGGGCACCGGA------GCAGCGGCGTCGGAGGCGGC
GGCGCCGGGGCGGGAGGGAGGGCGGACGCGGCGGCGCAGGGGCACTACCGCGGGGTGCGGAAGCGGCCGTGGGGCCGGTA
CGCGGCGGAGATCCGGGACCCGTGGAAGAAGACGCGGGTGTGGCTCGGCACCTACGACACCGCCGTCGACGCCGCGCTCG
CCTACGACCGCGCCGCCGTCGCGCTGCGCGGGCCCAAGGCCAGGACCAACTTCGCCGGCGGCCACCTCGCCCCGCACCAG
CAGCAGCAG---GCGTGCCTCCTGGCTCCCCGGCCGCCGGCGCGGCCCTTCGGCGGGCGCCTCGACGTCGCCCACCCGTC
CCCCTGGCACTTCGTCTACTTCCCGTCCAGGCTGCAGGAGTTCCTCGCGCAGCCGCTGCCGGCGGGTGACGC---GAGGG
ACGCCGCCCCGTCGCCGCCGTCCACGGTGCTGGAGCTCCGGACGGGGCCCAGCAGCTGCCCCCAGTTCGACCTCAACGAG
CCGCCGTCGCTCATGTTTGGGTCGTGA-----------------------------------------------------
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>chr1D_1_TraesCS1D01G314700
AAACGAATCAGGAAGCGACGCCCGCCCACGCCAGCGCCCCGCGCGGCTCCAGCCCAAAACCTTTTACGGCCCGGCGCGGC
GGGCCGGGCCCCGCCGCCGTCTGTGCGGCGCCGCACGCGCGGGGCCTCCGACCCCCACCCCGCAGCCGTGC-TGCCCCCC
GACCCACGACACCACGTGAACCACCGAACCGTGCCCCGGCACGTCGCCGTGCGTGCGTGGTGCGTCGCTCTCGCTCGCTC
GGCCGGCCACCTGGTCTGGGTCTGGCCTGCCACACACGCATCCCGGGGCCACAC-GGGTCAAAAGGCCCCGCGGCACATA
CGTACCATCAC-CACCTGGCCGGCGAA-GGGCTGCACCGGCCGTACAATGCGACGTAGTACGTGACACAACGTAACGTGC
AGGCCAGGCTCAGGCCGCTTTGCCCGGCCGCGCACGGCAGCGC-----AGGGTCAGTGGGTAGCGTAGGCCGGCTACGGC
CGCGCGCGCGGTACGGCGGGACGGGGAGGACGGGACGGGACGGGGTTGGA----------CGCATGATG---GATGGTGT
AGGGCTTGCGTCACGGCGGCAGGAGGCTGGCA--GTGCAGTGCAGGGCGGGGCGGCAGGGCCCCGCGCAGCGTCAAATCG
TGCGGCGGCTGGGGCGGAGGCG-----CCGCACGAGGCCCGGTCAGCGACAGCCTCCC---TCCCTCAAACCCCCGACGC
CTACCCCTACTCTACCCGCGGTGCCCCAGAGGC-----CTACGCCGCTAGTGCCACTGTGCCTCCCCACTTCACGAGGCG
CGCCATAGCCATGCCATAGCATAG-----AGTAGGCAGCGAGGGTCCGTCCGTCCCTGTGGGAGAAAGGAGAGCCAGTGA
GAAGGACCACGCTCAAGCTCAA-----GCGTGCCCATCCCGGCCTCCTGCCCTGCCGCTCCGTATAAGAGAGCTACCACT
CGCCAGCCAGGGTTCTTCAAAGAAACTCCACCGCACTCGCCAAGACGCCAACCATACTGTGAAGTGAGCGTAG--GAGGG
AGA-----------GGCGTCATGCAAATGCTGCCGGAGACGAGGGGGCACCGGA------GCAGCGGCGTCGGAGGCGGC
GGCGCCGGGGCGGGAGGGAGGGCGGACGCGGCGGCGCAGGGGCACTACCGCGGGGTGCGGAAGCGGCCGTGGGGCCGGTA
CGCGGCGGAGATCCGGGACCCGTGGAAGAAGACGCGGGTGTGGCTCGGCACCTACGACACCGCCGTCGACGCCGCGCTCG
CCTACGACCGCGCCGCCGTCGCGCTGCGCGGGCCCAAGGCCAGGACCAACTTCGCCGGCGGCCACCTCGCCCCGCACCAG
CAGCAGCAG---GCGTGCCTCCTGGCTCCCCGGCCGCCGGCGCGGCCCTTCGGCGGGCGCCTCGACGTCGCCCACCCGTC
CCCCTGGCACTTCGTCTACTTCCCGTCCAGGCTGCAGGAGTTCCTCGCGCAGCCGCTGCCGGCGGGTGACGC---GAGGG
ACGCCGCCCCGTCGCCGCCGTCCACGGTGCTGGAGCTCCGGACGGGGCCCAGCAGCTGCCCCCAGTTCGACCTCAACGAG
CCGCCGTCGCTCATGTTTGGGTCGTGATCTCTTCCGCCGCGCAGGGGTGTAGAGCTCCAACTTCCAAGTGTAGGATCATG
GTAGGTACTACGTACGTAGCGA----GTAGAGGTAATTTAGCGGGGTGGTGGAGAAGACTCGTCCGTGTGCTGTGTACAT
AAACTGCTGC-CCATTTTAGCAAAATTTCACCTTGTGT-CGCCTTGGTTGGTGTTCGTTTTTGCTGATCTCTTGCAGTTC
TGGCCT-CCTTGGTGGTGTCTCTTTGCAAGACACTTTAACCCGA------------------------------------
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--------------------------GACTGGTTTTCTTTGCCGCTTCTAAGCTGAG--------TTAGTGTTCGTGCGA
TATCCCATGGAATGGACATGGTTCCCTGAGTCGCATGTGGCCCAGGTGCTCGTCCGTGAGCCCAAGCGTACGTGCGGTGT
GGTGC--------------------ACGAATGCGTCAGTTTTGGCTCCACAGAGGTTGTTAACCGCAGCGTCATTGTGTT
TATAAATTGTTCCTGTCGCAGTAAGCCCCAATGGAGCACGCGAAGTATAAATTTATAAGCGAAACGTCCAACTATTTCAA
GTTAATGATCCTTGTGCTGAATTGTCTGTAATGATATGTGAGAAGTGATGTTGTGATTATTGTTATTTTATGTTTTGAGA
TTACTGTTATTATTGTTATTCGGTTGTCTAGCAGTTGTAGAAACTATGACCAGTACAATTCCAATTCAGTTTGTCTAATT
CACATCTAGATGTTTTTTTAAGGATGTCACATCTAAGATCCCACAAATATATAATGCAACAACAAGAAACAAAAAAACTA
GAAAAAAAATAGACCACAAAATAGAGTAGACATCAGCTTAGATGTGTCCTAGATAGACCCATTCCAATTACTCTTCAATT
TCAATGCGCTATGT--CAGAACTTACTCCAAAGAATAAAGCTTCCTAGTGCAGAAGGATACAAGTTAGTACTCCCTCCGT
TCCAAAATACTTGACTTTCATTTGTTCAAAAATGGATATACCTATATATACTAAAACATGTCTAGATACATCTATATTTT
GACAAA
>chr1B_1
AAACGAATCAGGAAGCGACGCCCGCCCACGCCAGCGCCCCGCGCGGCTCCAGCCCAAAACCTTTTACGGCCCGGTGCGGC
GGGCCGGGCCCCGCCGCCGTCTGTGCGGCGCCG-----------------------------------TGC-TGCCCCCC
GACCCACGACACCACGTGAACCACCGAACCGTGCCCCGGCACGTCGCCGTGCG----TGGTGCGTCGCTCTCGCTCGCTC
GCCCGGCCACCTGGTCTGGGTCTGGCCGGCCACGCGCGCATCCCGGGGCCACAC-GGGTCAAAAGGCCTCGCGGCACGTA
CCATCACCACCACACCTGGCCGGCGAA-GGGCTGCACCGGCCGTACAGGTCGGC---GTACGTGACACAACGTAACGTGC
AGGCC-----------GCCTTGCCCGGCCGCGCACGGCAGCGC-----AGGGTCAGTGGGCAGCGTAGGCCGGCTACGGC
CGCGCGCGCGGTACGGCGGGATGGGGAGGACGGGACGAGACGGAGCTGGA----------TTCATGATGGACGATGGTGT
AGGGCTTGCGTCACGGCGGCAGGAGGCTGGCA--G-----TGCAGTGCAGGGCGGCAGGGCCCCGCGCAGCGTCAAATCG
CGCGGCGGCTGAGGCGGAGGCG-----CCGCACGAGGCCCGGTCAGCGACAGCCTCCC---TCCCTCAAACCCCCCG---
--AGGCCTACCCTACCCGCGGTGCCC-AGAGGC-----CTACACCGCTAGCGCCACTGTGCCTCCCCACTTCACGAGGCG
CGCCATAGCCATGCCATAGCATAGAGT--AGTAGGCAGCGAGGGTCCGTCCCTGTGG------GAGAGGAGAGCCAGTGA
GAGTGACCACGCTCAAGCTGCGAGCGTGCGTGCCCATCCCGGCCTCCTGCCCTGCCGCTCCGTATAA--GAGCTACCACT
CGCCAGCCAGGGTTCTTCAGAGAAACTCCACCGCACT--------CGCCAACCATACTGTGAAGTGAGCAAGAGAGAGGG
AGA-----------GGCGCCATGCAAATGCTGCCGGAGGCGAGGGGGCACCGGA------GCAGCAGCGTCGGAGGCGGA
GGTGCCGGGGCGGGAGGGAGGGCGGACGCGCATGCGCAGGGGCACTACCGCGGGGTGCGGAAGCGGCCGTGGGGCCGGTA
CGCGGCGGAGATCCGCGACCCGTGGAAGAAGACGCGGGTGTGGCTCGGCACCTACGACACCGCCGTCGACGCGGCGCTCG
CCTACGACCGCGCCGCCGTCGCGCTGCGCGGGCCCAAGGCCAGGACCAACTTCTCCAGCGGCCACCTCGCCCCGCACCAG
CACCAGCAGCAGGCGTGCCTGC---CTCCCCGGCCGCCGGCGCGGCCCTTCGGCGGCCGCCTCGACGTCGCCCACCCGTC
CCCCTGGCACTTCGTCTACTTCCCGTCCAGGCTGCAGGAGCTCCTCGCGCAGCCGCTGCCGGCGCATGGTGC---GAGGG
ACGCCGCCCCGTCGCCGCCGTCCACGGTGCTGGAGCTCCGGACGGGGCCCAGCAGCTGCCCCCAGTTCGACCTCAACGAG
CCGCCGCCGCTCATGTTTGGGTCGTGATCTCTTCCGCCGCGCAACGGTGTAGAGCGCCAGCTTCCAAGTGTAGGATCATG
GTAGGTACTACGTACGTAGTGA----GTAGAGGTAATTTAGCGGGGTGGTGGAGAAGACTCGTCCGTGTGCTGTGTACAT
ATACTGCTGC-CCATTTTAGCAAAATTTCACCTTGTGTCCGCCTTGTTTGGCGTTCGTTTTTGCTGATCTCTTGCAGTTC
TGGCCT-CCTTGGTGGTGTCTCTTTGCAAGACACTTTAATTCGAGTAATGCTACACGTACAAACGAGTTACAAGGTTTTA
TAAAGAGATTTAATTTGATTGGTCAATATATGGGAAGGCGGCCCATCCTCTGAAAATCATGGGGGGCAAGTTTATGATTG
GTTAATAGATGAAAGAAATTCTAGTCATCGTGTAATTGTGTGTAACTCTTTATATGTTTAGCATTATTGCTTTAACCCCG
AGACTTTGCGAAATGCTGTAAAAAGCGACTGGTTTTGTTTGCCGCTTCTAAGCTGAG--------CTTGTGTTCGTGCG-
------ATGGAATGGACATGGTTCCCTGAGTCGCATGTGCCCCAGGTGCTCGTCCGTGAGCCCAAGCGTACGTGCGGTGG
GC-GC--------------------ACGAATGCGTCAGTTTTGGCTGTACAGAGGTTGTTAACCACAGCGTCATTGTGTT
TATAAATTGTTCCTGTCGCAGTAAGCCCCAATGGAACACGCGACGTATAAATTTATAAGCGAAACGTCCAACTATTTCAA
GTTAATGATCCTTGTGCTGAATTTTCTGTAGTTATATGTGAGAAGTGATGTTGAGATTATTGTTATTTTATGTTTTGAGA
TTACTGTC---ATTGTTATTCAGTTGTCTAGCAGTTGTAGAAACTATGACCGGTACA-----------------------
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------------------------------------------------------------ATTCCAATTACTCTTCAGTT
TCAATGCGTTATGTGTCAGAACTTACTCCAAAGAATAAAGCTTCCTAGTGCAGAAGGATA--------------------
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>chr1A_138
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---------------------------------------------------------CCCCGCCGCCGTCTGTGCCCCCC
GGCCCACGACGCCATGTGAACCACCGAACCGTGCCCCGGCACGTCGCCGTGCGC---------------------CGCTC
GCACCTCCACCTGGTCTGCCCGGGGGCG----CACGCGCATCCCGGGGCCACACGGGGTCAAAAGGCCTCGCGGCACGTA
CGTACCATCAC-CACCTGGCCGGCGAAGGGGCTGCACCGGCCGTACAGCGCGACGTAGTACGTGACACAACGTAACGTGC
AGGCC-----------GCTTTGCCCGGCCGCGCACGGCAGCGCGGCGCAGGGGCAGTGGGTGGCGTAGGCCGGCTACGGC
CGCGCGCTGGGTACGGCGGGATGGGGAGGACGGGACGGGACGGGACGGGACGGGGGCGGGCGCATGATG---GATGGTGT
AGGGCTTGCGTCACGGCGGCAGGGGGCTGGCAGGG-----TGCAGTGCAGGGCGGCAGGGCCCCGCGCAGCGTCAAATCG
CGCGGCGGCTGGGGCGGAGGCGCCGCACCGCACGAGGCCCGGTCAGCGACAGCCTCCCCCCTCCCTCAAACCCCCCG---
--ACGCCTACCCTACCCGCGGTGCCCCAGAGGCCTACTCTACGCCGCTAGCGCCACTGTGCCTCCCCACTTCACGAGGCG
CGCCATAGCCATGCCGTAGCATAGCATAGAGTAGGCAGCGAGGGT-----------------------------------
----GACCGAGCTCAAGCTCACGC--TGCGTGCCCATCCCGGCCTCCTGGCCTGCCGCTCCGTATAA--GAGCCACCACT
CGCCAGCCAGGGTTCTTCGGAGAAACTCCACCGCACT--------CGCCAGCCATACTGTGAAGCGAGCGAGCGAGAGAG
GGAGAGGGAGAGGCGGCGTCATGCAAATGCTGCCGGAGGCGAGGGGGCACCACCGGAGCGGCGGCGGCGTCGGAGGCGGC
GGTGCCGGGGCGGGAGGGAGGGCGGACGCGGCGGCGCAGGGGCACTACCGCGGGGTGCGGAAGCGGCCGTGGGGCCGGTA
CGCGGCGGAGATCCGCGATCCGTGGAAGAAGACGCGGGTGTGGCTCGGCACCTACGACACCGCCGTCGACGCCGCGCTCG
CCTACGACCGCGCCGCCGTCGCGCTGCGCGGGCCCAAGGCCAGGACCAACTTCGCCGGCGGCCACCTCGCCCCGCACCAG
CAGCAGCAGCAGGCGTGCCTCCTGCGTCCCCGGCCGCCGGCGCGGCCCTTCGGCGGCCGCCTCGACGTCGCCCACCCGTC
CCCCTGGCACTTCGTCTACTTCCCGTCCAGGCTGCAGGAGTTCCTCGCGCAGCCGCTGCCGGCGCATGACGGGAGGAGGG
ACGCCGCCCCGTCGCTGCCGTCCACGCTGCTGGAGCTCCGGACGGGGCCCAGCAGCTGCCCCCAGTTCGACCTCAACGAG
CCGCCGTCACTGATGTTTGGGTCGTGATCTCTTTCGCCGCGCAACGGTGTAGAGCTCCAGCTTCCAAGTGTAGGATCATG
GTAGGTACTACGTACGTAGTGAGCATGTAGAGGTAAGTTAGCGGGGTGGAGGAGAAGACTCGTCCGTGTGCTGTGTACAT
ATACTGCTCTGCCATTTTAGCAAAATTTCACCTTGTGTCGCCTTGGC-TGGTGTTCGTTCTTGCTGATCTCTTGCAGTTC
TGGCCTCCCTTGGTGGTGTCTCTTTGCAAGACACTTTAACCCGA------------------------------------
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--------------------------GACTTGCGAAATGCTGTAAAAAGCGACTCACTTGAGTTTTTAGTGTTCGTGCGG
TATCCCATGGAATGGACATGGTTTCCTCAGTCGCATGTGCCCCAGGTGCTCGTCCGTGAGCCCAAGCGTACGTGCACGAA
TGCGTCAGTTTTTTTTTTCGAGCAGACGAATGCGTCGGTTTTGGCTGTACAGAGGTTGTTAACCACAGCGTCATTGCGTT
TATAAATTGTTCCTGCCGCAGTACGCCCTAATGGAGCACGCAACGTATAAGTTTATAAGCGAAACGTCCAACTATTTCAA
GTTAATGATCCTTGTGCTGCATTTTCTGTAATGATATGTGAGAAATGATGTTGAGATTATTGTTATTTTATGTTTTAGGA
TTACTGT---TATTGTTATTCGGTTGTCTAGAAGTTGTAGAAACTATGACCGGTACA-----------------------
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------------------------------------------------------------ATTCCAATTACTCTTCAGTT
TCAATGCGCTATGT--CAGAACTTACTCCAAAGAATAAAGCTTCCTAGTGCAGAAGGATA--------------------
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>SNPs
--------------------------------------------------------------------------S-----
---------------------------------SSSSSSSSSSSSSSSSSSSSSSSS------S----------------
-----------------------------------------------------SSSS-----------------------
-S-------------------------S-------S--------------------------------S--------S--
-----------------------------------------------SS-------------------------------
-----SSSSSSSSSSS----------------------------------------------------------------
---------------------S-----------------------S----------------------------------
-----------------------------------SSSSS-----S--S-------------------------------
S--------------------------------------------------------------------------SSSSS
SS--S-----S---------------------------------------S-----------------------------
---------------------------------------------------S-SSSSSSSSSS--S--------------
--SS-----------------S---------------------------------------------SS-----------
-------------------S-----------------SSSSSSSS-------------------------SSS-------
--------------------------------------S-----------------------------------------
--S-----------------------------------------------------------------------------
---------------S----------------------------------------------------------------
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------------------------S-------------------------------S-----------------------
----------------------------------------------------------------SS--------------
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-------------------------------------------SS--------------S--------------------
-------------------S------------------------------------------------------------
-S--------------------------------------------S---------------------------------
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------------------------------------S------------------------------------------S
---------------------------------------S---------------------------------------S
--S-------------------------------------------SS----------------S---------------
-------------------------------------------S------------------------------------
-----------------------S-----------------------------S--------------------------
-------SSS-----------------------------------------S-----SSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS-----------------S--
------------------------------------------------------------SSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSS
>forward_999
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-------------------AAGAAACTCCACCGCACTCG-----------------------------------------
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>reverse_2787
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------------------------------------------------------------------AGTACTCCCTCCGT
TCCAAA--------------------------------------------------------------------------
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