>input_sequence_65861
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-------ATGGGGAAGCCGCGGGCGGTGCTGGCCCTGGCTGCG---------------GCGGCGGCGGCATTGCTCCTCT
CCTTCTTGGCCGCCGCCGTAGGGGGGCAGGGCGCCGGGAGGATCCAAGGTATGGGTGGATGCGCGATGCACCTGATTGGT
CTGAGAAATCCGTGGTTTCCGTTGGTAGAGAATAGCATAGCATAGCATAGCGGGCAGAATAGCTTCGTCTAGCTCGGGAT
CTCTGACCCATTTCACTAGTCTGGTCTGTTGTAAGGCCTATTTCATATCAGATGCAAATGGATTATATAGATAGGTTTTT
TTTTTGAGGTGAGATTATAGATAGGTGGAATGGTAGTTTCTGTTGGTGTTCTAATCTACACCC-AAGTGATTCGTCTTGT
TTCTGGTTCAGTTCTAACCATCTTTTATTAAGCACCTGATGCTATTGACACTTTGTTGATTCAGTCAAGACATGTTTCTT
GCTTA------CAGGGATCATGAATTCATGATTCATGCCATCTAGTCTAGGGTCAGATCTGCACCTTGCTTACCG----G
TCATAGTATCATACCACCATGCTTTCAATCAAAGTGCTATGTGATCATAAGCAATGCCCTCAAACTTGGTATATTCTTTC
CTCCACATTTGGGCAAAACTAATAGATGTCCTCTGGCCAACAGAGTATAGGAAGTGCTGATGATGACTCTGCCAGGGGGC
TCAAGGTGTATATGTATATCTATGGTCTCCCTGAAAAATACAACAAGCCGCTGAAGAAGGAACCTAGGTGCCTGAACTAC
ATGTTCGCCATGGAGATCTTCATGGAACAGTTTCTGTTGCCGAGTGTGATCCAGATTTTAATCCCGAGGATGCAATTTGG
TTGTATACATGCTATTCAGATGTGCAGCGCAATTGAGCAGATTACGACGAAATGA-------------------------
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>chr3B_1_TraesCS3B01G474600
GTTTTCGGCCTGTATCTGAGGTATTCCGTGAACTATAAACTCACTTTACAGGTCCGCAATATAAGAGCAACTCTAGCAGA
CCCCTTAAAACGCGCCAACC-GCATAATAACCACTCGCTTATGGTTTCAAACGAAAAAAGTGGCCAGATCAGAAAACGTA
TGGCCCGGCGAACTATAAAAATAATTACGGGGCACGGAAAAACTTCCCCTTCAACCTTTAGATTCACGAGGTGGGAGGCT
GGCCCGAGGATACCCTGTATATGCGAAAGACCGTCGGCGGGAGTCCAACTGCCATCGGAAACTTCATAGCTCGAAAGACC
GTCGGCGAGAGTCCAACTGCCATCGGAAACTTCATAGCTCGCTCCCCTGCCGCCGCCCGTCCGTCCTAGTCGCCGCCCGT
CTGTCCCCGGCCGCCACCCGTCCGTCCTGGGCACCGTCCCGTCCGTGCGGAGCTCTTGGATCAATCCGGACACGAATGAG
CTAGCTAGCTGGATCCAGCCGGCCACAG-CGAGCTAGCTAGCTCCCGGATCCATCCGACCACGAACGAGTTGCCTTCTGG
ATTGATTTGGCGACTACGAAGACGGAAGCTGACTATGAACACGGAAACAAACAAGAGGAAGAAAAAGACGTGGAGAAGAA
TATAAGCGAATATTCGCTTTATA-GTTTTAGTTTAAAGGTTTGCTCGGCCTCGGTTAAAACCAACCCTTAAAATGTGTTT
TCAGTTTCGCAGTTTAAGGGTCTGCTAGAGTTGCTCTAAGA---CTGCTCTAATTTAGAGCCACCATGAC---------G
CGAAGCCCACCGGCGGCTCATCGTTGACACGGAGAGCCCCGGGAGGCCGTACCGACGGCACGCCGCTGCTTGTTCCCACC
GCCCCCTCCATCTGATCTCCCTGTCCCTCTCGCCCGCCCGCATTACACCTCCCGCCTCCAACGAGCAGCAGATTCATCAG
CAGTTCGCTTTCTCTCCGTTCCGGCCTCTTGGCGCTGACGACTCCGCAAGC-----------------------------
---GGCGATGGGGAAGCCGCGGGCGGTGCTGGCCCTGGCTGCG---------------GCGGCGGCGGCATTGCTCCTCT
CCTTCTTGGCCGCCGCCGTAGGGGGGCAGGGCGCCGGGAGGATCCAAGGTATGGGTGGATGCGCGATGCACCTGATTGGT
CTGAGAAATCCGTGGTTTCCGTTGGTAGAGAATAGCATAGCATAGCATAGCGGGCAGAATAGCTTCGTCTAGCTCGGGAT
CTCTGACCCATTTCACTAGTCTGGTCTGTTGTAAGGCCTATTTCATATCAGATGCAAATGGATTATATAGATAGGTTTTT
TTTTTGAGGTGAGATTATAGATAGGTGGAATGGTAGTTTCTGTTGGTGTTCTAATCTACACCC-AAGTGATTCGTCTTGT
TTCTGGTTCAGTTCTAACCATCTTTTATTAAGCACCTGATGCTATTGACACTTTGTTGATTCAGTCAAGACATGTTTCTT
GCTTA------CAGGGATCATGAATTCATGATTCATGCCATCTAGTCTAGGGTCAGATCTGCACCTTGCTTACCG----G
TCATAGTATCATACCACCATGCTTTCAATCAAAGTGCTATGTGATCATAAGCAATGCCCTCAAACTTGGTATATTCTTTC
CTCCACATTTGGGCAAAACTAATAGATGTCCTCTGGCCAACAGAGTATAGGAAGTGCTGATGATGACTCTGCCAGGGGGC
TCAAGGTGTATATGTATATCTATGGTCTCCCTGAAAAATACAACAAGCCGCTGAAGAAGGAACCTAGGTGCCTGAACTAC
ATGTTCGCCATGGAGATCTTCATGGAACAGTTTCTGTTGCCGAGTGTGATCCAGATTTTAATCCCGAGGATGCAATTTGG
TTGTATACATGCTATTCAGATGTGCAGCGCAATTGAGCAGATTACGACGAAATGACCTTACTGGAATAGATCAAGGGAGG
GGATCATTTCTTTGTCACACACA-TGACTTTGGTGCTTGCTTCCGTTATGAGGTACAGACACGAGTTCAAATCCTTGTTA
TGGACCCATCCTCTTAT--AATAAGAAATTGTGTAATGCTGAGTACATGTGTTTCGAGCAACT-GGACATATCCAATTGC
AGCACAGCACATGGGGCAATGGACCTTCTGTATACTCTACTGAATGGGCCAGTCTGACTTAATTACTTCTGTCTGCACAT
GTGCTTTGGCACTTTGCTTCAGATAATAATTTGTTTTCTTCTCTGAAAGACTGTCAGACTGCTCTTCATACTCATAACCA
GCTGTCTAGTTGAAAATAACCACCTGTCATTCCATACCATATTTCCTTC--ACTGACATACAATGAATCTTGTTGGCTAT
ATAAAGTTTCAAACACCAGTTCTATCTTTCTTTAACAAATTCTTCTAATGTAATTTCAGGAAGAGAAACCAATTGTACGA
GGAGTAGGCATGCGCGGGTGTTTTTTGGTCATCTCTTCTCCCATGTATTCCCTTGTGCTCTGGTTAGTTTGAACCTATGT
TGCAAGGGGCTGCAATGCCTATCGTAGGCAAAAGTGAATGAAAATTCAGGTGCACACCCCCCCCCCCTCCGGTGACCATT
AAACGAAGGTTT--------------------------------------------------------------------
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-----------------------------------------------------TTTATTCTTTTGTGGACCAAAAGTTTG
GTTAGTTGGAACAAAAACAATCTTAGAGCAAGAAATATTAAAAAAAGGACAGACCCAGTGCATAGAAGCTCCCACACAAG
GTGGGGTCTGGGTAGAGCAAGAAATATTGTGAGGAAATAAATGTTTCTTCAACAAAAGTAGTTCTCAAAA-TTTTCTCAT
TGCACGGTAGAACAAAAAAAAACAGCGCCTTACAGACTAGCTCTAGTGGTCTTCAATGGAAATTGTTCTCCTCTGCATTT
GGTCGCTGCTTCTGCTGATTAATAGGTCCAGCTAAATTGCCCGGTACAAGTTGCGAATAGTAT
>chr3D_1
GTTTTCAGCCTGTATCCGAGGCATTTTGTGAACTGTAAACTCACTTTACAGGTCCGCAATATAAGAGCAACTCTAGCAGA
CCCTTTAAAACGCGCCAACCCGCATAATAACCACTCGTTTACGGTTTCAGGCGAAAAAAGTGGCCAGATCAGAAACCGTA
TGGCCCCTTGAACTGTAAAAAAAAATTGGGGACCA-GAAAAACTTCTCCCTCGACCTTTAGATTCACGAGGTGGAAGGCC
GACCCGAGGATGCCCTGTATATGCGAAAGACCGTCGGC------------------------------------------
-------AGAGTCCAACTGCCATCGGAAACTTCATGGCTCACTCCCCTGCCGCCGC-------------------CCCGT
CCGTCCCCGGCCGCCACCCGTCCGTCCTGGCCGTCGTCCCGTCCGTGCGGAGCTCTTGGATCGATCCTGCCACGGGCGAG
CTAGCTAGCTGGATCCAGCCGGCCACGGACGAGCTACCTAGCTCCCGGATCCATCCGGCCACGGACGAGTTGCCTCCTGG
ATCGATTCGGCGACTACGGCGACGGGAGCTAACTATAAACACGAACACGAACGAGAGGAAGAAAAAGACGTGGGAAAGAA
TATAAGCGAATATTCGATTTTACCGTTTTAGTTTGAAGGTATGTTCGGCCGCAGCTCAAACCAATCCTTATCATATGTTT
TCAGTTTCGCAGTTTAAGGATATGCTAGAGTTGGTCTAAGGACTCTGCTCTAACTTACAGCCACCGTGACCAGTGTGAGG
CGAAGCCCACCGGCGGCTCATCGTTGACACGGAGAGCCCCGGGAGCCCGTACCGACGGCACGCCGCTGCTTGTTCCCACC
GCCCCCTCCATCTGAT----CTGTCCCTCTCTCCCGCCCGCATTACACCTCTCGCCTCCAACGAGCAGCAGATTCATCAG
CAGCTCGCTTTCTCTCCGTTCCGGCCTCTTGGTGCTGACGACTCCGCAAGCAAGGGCGGCGGGGGGCAGGTGTGGGTGGC
GGCGGCGATGGGGAAGCCGCGGGCGGTGCTGGCCCTGGCGGCGGCGGCGGCGGCGGCGGCGGTGCCGGCATTGCTCCTCT
CCTTCTTGGCCGCCGCCGCCGGGGGGCAGGGGGCCGGGAGGATCCAAGGTATGGATGGATGCGCGATGCACCTGATTGGT
CTGAGAAATTCGTGGTTTCCATTGGTAGAGA------TAGCATAGCATAGCGGGCAGAATGGCTTCGTCTAGCTCGGGAT
CTCTGACCCGTTTCACTAGTCTGGTCTGCTGTAAGGCCTATTTCATATCAGATGCAAATGGATTATATAGATAGGT----
-----------------------GGTGGAATGGTAGTTTCTGTTGGTGTTCGAATCTACACCCCAAGTGATTCGTCTAGT
TTCTGGTTCAATTCTAACCATGTTTTATCAAGCACCTGATGCTATTGACACTTTGTTGATTCAGTCAAGACATGTTTCTT
GCTTTCAGTTTCAGGGATCATGA--------TTCATACCGTCTAGTCTAGGGTTAGATCTGCACCTTGCTTACCTATCTG
TCATAGTATCATAC---CATGCTTTCAATCAAAGTGCTATGTGATCAGAAGCAATGCCCTCAAACTTGGTATATTCTTTC
CTCTACATTTGGGCAAAACTAGTACATGTCCTGTGGCCAACAGAATATAGGAAGTGCTGATGATGACTCTGCCGGGGGGC
TCAAGGTGTATATGTATATCTATGGTCTCCCTGAAAAATACAGCAAGCCGCTGAAGAAGGAACCAAGATGCCTGAACTAC
ATGTTCGCCGTGGAGATCTTCATGGAACGGTTTCTGTTGCCAAGTGTGATCCAGATTTTAATCCCGAGGATGCAATTTGG
TTGTACACACGCTATTCAGATGTGCAGCGCAATTGAGCAGATTACGACGAAATGACCTTACTGAAATAGATCAAGGGAGG
AGATCATTTCTTTGTCACACCACGTGACTTTGGTGCTTGCTTCCGTTATGAGGTACAGACGCGAGTTCAAATCCTTGCTA
TGGCCCCATGCTCTTATTTAATAAGGAATTGTGTGACGCTGAGTACATGTGTTTCGAGCAACTGGGACATATCCAATTGC
AGCACAGCGCATGGGGCAATGGACCTTCTGAATACTCTACTGAATGTGCCAGTCTGACTCAATTACTTCTGTCTGCTCAT
GTGCTTTGGCACTTTGCTTCAGATAATAATTTGTTTTCTTCTCTGAAAGACTGTCAGACTGCTCTTCATATTCATAACCA
GCTGTCTAGTTGAAAATAACTACCTGTCATTCCATACCATATTTCCTTCTGACTGACATACAATGAATCTTGTTGGCTAT
ATAAAGTTTTAAACACCATTTCTATCTTTCTTTAACAAATTCTTCTAATGTTATTTCAGGAAGAGAAACCAATTGTACGA
GGATTAGGCATGCGCGGGTGTTTTTTGGTCGTCTCTTCTCCCATCTATTCCCTTGTGCTCTGGTTAATTTGAACCTATGT
TGCAAGGGGCTGCAATGCCTATTGTAGGCAAAAGTGAATGAAAATTCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTTTATTCTTTTGTGGACCAAAAGTTTG
GTTAGTTGGAACAAAAACAATCTTAGAGCAAGAAATATTGTGAGGAAA--------------------------------
--------------------------------------AAATGTTTCTTCAACAAAAGTAGTTCTCAAATTTTTTCTCAT
TGCACGGTGGAACAAAAAAA--CAGCACCTTACAGACTAACTCTAGTCGTCTTCAATGGAAATTATTCTCCTCTGCATTC
AGTCGCTGCTTCTGCTGATTAATAGGTCCAGCTAGACTGCCTGGTACAAGTTGCGACTAGTAT
>SNPs
------S---------S----S---SS-------S---------------------------------------------
---S---------------------------------S---S-------SS------------------------S----
------SSS-----S------S--S-SS---S-SSS----------S--S--S---------------------S----S
-S---------S--------------------------SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSS----------------------------S----S---------------SSSSSSSSSSSSSSSSSSS-----
-S----------------------------S-SS----------------------------S----S-S----SSS---
--------------------------S---------S--------------------S-----S-----------S----
--S----S----------SS-----S----S-----S------S-S--S---S--------------------SS-----
----------------S---SSS-----------S-----S--S------S-S-S-S-------S-----SS--S-----
-------------------S-S-----------S------S------------S---S-------S--------------
---------------------------------------------S----------------------------------
----------------SSSS-----------S-------------------S----------------------------
---S----------------------------S-----------------------------------------------
---------------------------------------S----------------------S-S---------------
------------------SS-----------S----------------------S-------------------------
---------S----------S----------SSSSSS-----------------------S-------------------
---------S------------------S-----------------------------------------------SSSS
SSSSSSSSSSSSSSSSSSSSSSS----------------------------S-------------------------S--
----------S----------S------S---------------------------------------------------
----S------------------SSSSSSSS-----S--S-------------S--------------------S-----
--------------SSS------------------------------S--------------------------------
---S-----------------S--S-------S-----------S----------------------------S------
------------------------------------------S---------------------S--S------------
---------S------------------S------------S--------------------------------------
-----S---S-----------------------------------------------------S----------------
S-------------------SSS-------------------------------------S----------------S--
---S-----S---------------S--------S-S-------------------------------------------
--------S---------------------S---------------S------------S----------------S---
----------------------------------------------------------------------S---------
--------------------S-----------------------------------------------------------
---------S--------S--------------------------------S----------------------------
---S--------------------------S-------------S---------------------S-------------
----------------------S------------------------SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSS--------------------------------------------------------------------
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---------------------------------------SSS-SS-SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS-------------------------------S----------
--------S-----------SS----S------------S-------S----------------S--------------S
S---------------------------------S-S----S--------------S------
>forward_300
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----------------------------------------GAGTCCAACTGCCATCGGAA--------------------
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>reverse_1210
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---------CCGTGGTTTCCGTTGGTAGA---------------------------------------------------
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>forward_912
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------------TGATCTCCCTGTCCCTCTCG------------------------------------------------
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>reverse_1803
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------------------------------------------ACAAGCCGCTGAAGAAGGAA------------------
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>forward_1754
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------------------------------------------------------TGCTGATGATGACTCTGCCA------
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>reverse_2944
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---------------------------------------------------------------AGAAGCTCCCACACAAG
GTG-----------------------------------------------------------------------------
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