>input_sequence_81254
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-----------------------------------------------------------------------------ATG
GAGGCGGATGAC------CGCGACGACGACGGCTGGCAGTGCCGGCCGCTGGGGCTCCTGATCGGCCTGCCGTTCGCCGC
CCTCGCGTTAGTGCTCTCGCTCGCCGGCGCCGTCGTCTGGATCCTCGGGTGCGTGCGCGTCTCTTCCTGGCTACTCCCTC
GACCCTCATGCATGCCAGCCCGAACTTCTGGGTGCTTGCGACATTGGCTTAGACTTTGGTTTCTCTGCGTCGACTTTTGT
CACCACCATAACGTGAGTGTGTCTCTGAACTCCTTTTTCTCTTTGTAGGTCGGCGCTGAGCTGCGTGTGCCCGTGCTGCG
TGTGCTGCGCGGCGGCGGCGAACCTGGCGGTGGGCCTCGTCCAGATGCCCGTCAAGGTCATCCGCTGGTTTATCAGGCAG
ATCCCCTGCTAG--------------------------------------------------------------------
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----------------------------------------------------
>chr3B_1_TraesCS3B01G191800
GGGAC-CCTCAGGTTGATCCAGCGATCGAAGTAGGAGGGCTTCTCGATGCCCTT-AAGCGGCACTCGAACTTGAGCATGG
TGCGGCAATCCCAGTCTCCCCATGTAACGACCGCCAAGCGGCCGCCGGATCGCTTGGTCCCTGCCC-CCGTCGTCGCCGC
CCTCAGCCAGGCGTCGTGCAGCCGGAGCGCCTGGCCGAGATCCACGCCGCCGTCGACGTCCTCCTGCTGGATGCCGGTGA
GGTCCCTGCAGAACTGGGTCAGCACAGGGTGGTGCTTCGGGCGGATGTAGCGGCGAAACGCGGACTCGAGGCGGCCGGTG
GCGGCGTCGACGAGGACCGCGGGGAACTCGATGATCTCCTGCGGGTAGATCCGCGCGTCTTTCTGGCACGTCGCCTCGAA
GTCCACTACCAAGAAGTAGTCGAAATCTTGCTGCAGTTCATGGCCCTGCCCCTGTGCGTACGGCACTGTGCACGCCGCCA
TGTCCGCC------------------GCGT----GCTCTGAGCAGGAGCGGATCGCCTCGCAAACTCGAGACCGGGGAAA
CTCGGGATTGAATCAGTATGCGGAAGTAAAAACCAGGGCGGCGATCTCCGCCTCTTAAAGCCACG-CACCGGAGTAAACA
CTGTAGGAGGCGAAATCGGATTCATTTTGTTTTCGTAATCGTGCGTGCAGGCACACCCGGATCCCAGGCGGACCTGGCAA
CCGACCTCGTGATGAGCTTCTGCGCTTTGGTAAGAACAGTTAAGCATATAACATACCAAAGGCTGTGGTTGGCGGGGAAA
A-AAAGGACTGCCACGCACGCTGCCCGTTCGGTTCCGCTCCACTCTCCGGAGTGGAGCTCCCCCGCCCCGCAC-----GT
A--TTCGGTGCTGGCAGTTCGAGTTCAATTCACAGCGTTATTTACCAACCGTTTGGTTTC--GGTTTCGGACTTGCTTCC
-AACTTCCCAGTTCGCACACGCACCTACGAAGGGCGCTACGTAGGAACAACCGGCTGGAGGAGCCGGAGATCGATCAATG
GAGGCGGATGAC------CGCGACGACGACGGCTGGCAGTGCCGGCCGCTGGGGCTCCTGATCGGCCTGCCGTTCGCCGC
CCTCGCGTTAGTGCTCTCGCTCGCCGGCGCCGTCGTCTGGATCCTCGGGTGCGTGCGCGTCTCTTCCTGGCTACTCCCTC
GACCCTCATGCATGCCAGCCCGAACTTCTGGGTGCTTGCGACATTGGCTTAGACTTTGGTTTCTCTGCGTCGACTTTTGT
CACCACCATAACGTGAGTGTGTCTCTGAACTCCTTTTTCTCTTTGTAGGTCGGCGCTGAGCTGCGTGTGCCCGTGCTGCG
TGTGCTGCGCGGCGGCGGCGAACCTGGCGGTGGGCCTCGTCCAGATGCCCGTCAAGGTCATCCGCTGGTTTATCAGGCAG
ATCCCCTGCTAGGCTCGTCAATTGTCCTTCTGGAGTAGTAAATGTTGTTATCTTCTTTTCAGTTTTATA-----------
--------------------------------------------------------------------------------
---------------------------TGCATGCTTGCTGAACGAGAGGCCAGAGATATGATATCATCGTGTTTCTGCTT
CCCACGTCTCACCTAATAAATAAAGCGACGCCGTAGAGGCAAAACATGTTCTTTCTCGAGACAGTTTAGGACGATGCTTT
TCATGACCCTGACACAACTTATGTATGTACATTTTGATAACAAGTATTTTCGGACGGAGGAAGTATGTATCTTGAAAAAT
CGATGACTATGTTATGTAGATTCGTATATGAATCTGGATGGTTAAAAGGGGAAACGAACTAGTATCTACCTTCAAAAATC
GATGACTATGTTCTGTAGATTCCTATATGAATCTGGATGGTTAAAAGGGGAAATGAACGATTGC----------------
--------------------------------------------------------------------------------
---------AAAAGTTAACATGAGCTCCGGTCTTTTAGGGTGCAACACATTTTGTAGTCTTGGCATCTATAACCG-----
--------GACCTCTCAAACGTCTAATCAGGCAACTTGGTCACTGTCCGGACAGGTGAAAGGAGGACAAAAGTCACCCAA
CCACAACCCTCACTTTGTGCGGACATGTCCCATAAATCCACAAATCCCTATACCCAACTCATATGTGTGGAGGATATG-G
GATGTTCGGT-AGCCCTTCATGTAGGATGCGGCCTACCTCGTACCACTTTTGTCTTTCTT-TCTTCATGCCCATCAATCA
TATGCATTTGACTGGACAATTAGGAAGGTTGTAGAGGAGATGGTTGCATGCATGCATAAATGAAGACTCAAAACGGACAC
GTCCGGTCACTGACGGTGCACATCCACGGATG-TTTGGGGATCAAAATTAACCAATCATGGTTATATATACTCTTACAAT
CTTTGGGTTGGCCTCAAGAGGTCCACCTTGACGAGGCGGTGTTGATGAAATTAAACACATTAAGGCGTGGTAGAAAGGTG
GCCAACCAGCTATGTCACGTGGCGCATACTGGTTGGCCGTGGTGAAAAAGTT
>chr3D_1
GGGAGCCCTCAGGTTGATCCAGCGATCGAAGTAGGAGGGCTTCTCGATGCCCTTGAAGCGGCACTCAAACTCGAGCATGG
TGCGGCAATCCCAGTCTCCCCACGTAACGACGGCCAAGCGGCCGCCACATCGCTTGGTCCCTACCC-CCGTGGTCGCCGC
CTCCAGCCAAGCGTCGTGCAGCCGGAGGGCCTGGCCGAGGTCCACGCCGCCGTCGACGTCCTCCTGCCGGATACCCGTGA
GGTCCCTGCAGAACTGGGTGAGCACGGGGTGGTGCTTCGGGCGGATGTAGCGGCGAAACGCGGACTCGAGGCGGCCTGTG
GCGGCGTCGACGAGGACGGCGGGGAACTCGATGATCTCCTGCGGGTAGATCCGCGCGTCTTTCTGGCACGTCGCCTCGAA
GTCCACCACCAAGAAGAAATCGAAGTCTTGCTGCAGCTCATGGCCCTGCCCCTGTGCGTACGGCACTGTGCGCGCCGCCA
TGATCGGCGCCATCGCCATGTAAGCTGCGT----GCTCTGAGCAGGAGCGGATCGCCTCGCAAACTCCAGACCGGGAAAA
CTCGGGATTGAATCAGTGTGAGCAAGCGAAAACCAGGGCGGCGATCTCCGCCTCTTAAAGCCACGGCACCGGAGCAAACA
CTGTAGGAGGCGAAATCGGATTCATC-----TTCGTAATCGTTGGCGCAGGCGCATCCGGATCCCGGGCGGACGTGGCAA
CCGACCTCATGACGAGCTTCTACGCTTTGGTAAGAACAGTTAACCAA--AACATACCAAAGGCTGTGGTTGGCGGGTGAA
A-AAAGGACTGCCACGCACGCTGCCCGTTCGGTTCCGCTCCACTCTCCGGAGTGGAGTTCCCCCGCCCCGCAC-----GT
ACTCTCGGTGCTGGCAGTTCGAGTTCAATCCACAGCGTTATTTACCAACCGTTTGGTTTC--GATTTCGGACATAGTTCC
AAACTTTCAAATTCGCACACGCACCCACGTAGGACGCTGCGGAAGAACAACCGGCTGGAGGAGCCGGAGATCGATCGATG
GGGGCGGACGATG---GTCGCGACGACGACGGCTGGCAGTGCCGGCCGCTGGGGCTCCTGATCGGCCTGCCGTTCGCCGG
CCTCGCGCTAGTGCTCTCGCTCGCCGGCGCCGTCGTCTGGATCCTCGGGTGCGCGCGCGTCTCTTCCTGGCTGCTCCCTC
-------ATGCATGCCAACCTGAACGCCTGGGTGCTTGCGACTTTGGCTTAGACTTTGGTTTCTCTGCTTCGGCTC----
-------------------TGTCTCTGAACT--TTTTTCAATTGGTAGGTCGGCGCTGAGCTGCGTGTGCCCGTGCTGCG
TGTGCTGCGCGGCGGCGGCGAACCTGGCGGTGGGCCTCGTCCAGATGCCCGTCAAGGTCATCCGCTGGTTCATCAGGCAG
ATCCCCTGCTAGGCTGCTCAATTGTCCTTCTGGAGTAGGAAATGTTGTTATCTTGTTTTCAGTTT--TA-----------
--------------------------------------------------------------------------------
---------------------------TGCATGCTTGCTGAACGAGAGGCCAGAAATATGATATGATCGTGTTTCTGCTT
GCCACGTCTCACAACTTCATATGTATCTGCCTTG--------AACATGTTCTTTCTCGAGACAGTTTAGGACGATGCTTT
TCTTGACCCTGACACAACTTCATAT-------------------------------------------------------
-------------------------------------------------------------GTATCTACCTTGAAAAATC
GATGACTATGTTCTGTAGAT------ATGAATCTGGATGGTTAAAAGGGGAAACGAACGATTGC----------------
--------------------------------------------------------------------------------
---------AAAAGTTAACATGAGCTCCGGTCTTTTAGGTTGCAACACATT-TGTAGTCTTAGCATCTACAACCG-----
--------GACCTCTCAAACGTCTAATCAAACAACCTGGTCACTGTCCGGACGGGTGTGAGGAGGAAAAAAGTCACCCAA
CCACAACCCTCACTTTGTCCAGACATGTCTGACAAGTCCACAAATCCCTATATCCAACTCATATGTGGGGAGTATATGGA
GATGTTCGGGCAGCCCTCCATGTAGGATGCAGCCTACCTCAGACCACCTTTTCTCTTTCGATCTTCATGCTCATCAATCA
TATGCATTTGACTGGACAATTTGAAAGGATGTAGGGGACATGATTGCATGCGTGCACAAATGAAGACTC-AAACGGACAC
GCCCAGTCACTGGCCGGGCACATCCACGGATGTTTGGGGGATCAAAATTAGCCAATCCCGATTATAGATGCTTTGACAAG
TTTTGAGTCGGCCTCTGGAGGTCCACCTTGACAAGGCGGTGCTAATGAAATTA---------------------------
----------------------------------------------------
>chr3A_1
GGGAC-CCTCAGGTTGATCCACTGATCGAAGTAGGAGGGCTTCTCGATGCCCTTGAAGCGGCACTCGAACTCGAGCATGG
TGCGGCAATCCCAGTCTCCCCACGTGACGACGGCCAATCGGCCGCCGCATCTCTTGTCCCCTGCCCCCCGTCGTCGCCGC
GCTCAGCCAAGCGTCGTGCAGCCGGAGCGCCTGGCCGAGGTCGACGCCGCCGTCGACGTCCTCCTGCCGGATGCCGGTGA
GGTCCCTGCAGAACTGGGTGAGCACGGGGTGGTGTTTCGGGCGGATGTAGCGGCGAAACGCGGACTCGAGGCGGCCGGTG
GCGGCGTCGACGAGGACGGCGGGGAACTCGATGATCT-------GTAGATCCGCGCGTCCTTCTCGCACGTCGCCTCGAA
GTCCAC----------TAGTTGAAATCTTGCTGCAGCTCATGGCCCTGCCCCTGTGCGCACGGCACTCTGCCCGCCGCCA
TGATCGGCTCCATGCTGTTCGCCAACATACCCGCGCTCTGAGCAGGAGCGGATCGCCTCGCAAACTCAGTACCGGGTAAA
CTCGGGATTGAATCAGTGTGAGCAAGCGAAAACCAGGGCGGCGATATCCCCCTCTTAAAGCCGCGGCACCGGAGCAAACA
CTGTACGAGGCGAAATCGGATTCATT-----TTCGTGGTCGTTCGCGCAGGCGCATCCGGATCCCAGGCGGACCTGGCAA
CCGACCTCATGACGAGCTTCTACGCTTTGGTAAGAACAGTTAACCAA--AACATACCAAAGGCTGTGATTGGCGGGAAAA
AGAAAGGACTGCCACGCACGCTGCCCGTTCGGTTTTGCGCCACTCTCCGGAGTGGAGTTCCCCCGCCCCGCACCGCACGT
A--CTCGGTGCTGGCAGTTCGAGTTCAATTCACAGCGTTCTTTACCAACCGTTTGGTTTCTCGGTTTCGGGCATAGTTCC
-AACCTCCCAGTTCGCACACGCACCTACGTAGGACGCTGCGGAAGAACAACCGGCTGGAGGAGCCGGAGATCGATCGATG
GGGGCGGACGATGGTCGTCGCGACGACGACGGCTGGCAGTGCCGGCCGCTGGGGCTCCTGATCGGCCTGCCGTTCGCCGC
CCTCGCGTTAGTGCTCTCGCTCGCCGGCGCCGTCGTCTGGATCCTCGGGTGCGTGCGCGTCTCTTCCTGGCTGCTCCCTC
GACCCTCATGCATGCCAGCCCCATCTTCTGGGTGCTTGCGACATTGGCTTAAACTTTGGTTTCTCTGCTTCGGCTTGTTA
G-----CATAACGTGAGTGTGTGTCTGAACTCG-TTTTCTCTTGGTAGGTCGGCGCTGAGCTGCGTGTGCCCGTGCTGCG
TGTGCTGCGCGGCGGTGGCGAACCTGGCGGTGGGCCTCGTCCAGATGCCCGTCAAGGTCATCCGCTGGTTCATCAGGCAG
ATCCCCTGCTAGGCTGCTCAATTGTACTTCTGAAGTA---AATGTTGTCATCTTGTTTTCAGTTG--TACTCCCTCCGTC
TGAAATTACTTGTCATAGAAATAAATAAAAGTAGATGTATCTAGAATTAAAATGCGTCTAGATACATATATTTTTATTGT
AAGTATTTCCGGACAGAGGGAGTAGTTTGCATGCTTGCTGAACGAGAGGCCGGAGATATGATTTGGTC--GTGTTTCCTT
CCCACGTCTCACCTAAATAAACGACGCCG--CGTAGAGGCAAAACATGTTCTTTCTCGAGACATTTTAGGACGATGCTTT
TCACGACCCTGACACAACTTCATAT-------------------------------------------------------
-------------------------------------------------------------GTATCTCTT----------
------------------AT------ATGAATCTGGATGGTTGAAACGGGAAACGAACGATTGTACTTCCTCCGTTCGGA
ATTATTTGTCGCAGGTATGGATGTATCTAGATGTATTTTAGTTTTAGATACATCCATTTCTGCGACGAGTAATTTGGAAC
GGAGAGATTAAAAGTTAACATGAGCTCCAGTTTTTTAGGGTGCAACCCATTTTGCATTCTTAGCATCTACTCTGGACGTG
TACAATCTGACCTCTCAAACGTCTAATCAGACAACTTGAACATTGTTCGGACAGATGAGGGGAGGAAAGGAGTCGCCCAA
GCACAACCCTCACTTTGTCCCAACGTGTCCGGTAAGTCCACAAATTCCTATATTCAATTCATATGTGGGAAGGATATGAG
GATGTTCGGGCAGCCCTCTATGTAGGATGCGGCCTACCTCGGACCACATTTTCTCTTTC----TTCATGCCCATCAATCA
GATGCATTTGACTGGGCAATTTGGGAGAATGTAGGGGACATGGTTACATGCATGCACAAATAAAGACTCAAAACGGACAC
GCCCGGTCACTGACCGAGCACATCCACGGATG-TTTGGGGATCAAAATTAGTCAGTCCTGATTATATATGCTCTTACAAG
CTTTGGGTCGGCCTCAGGAGGTCCACCTTGACGAGGCGGTGCTTATGAAATTA---------------------------
----------------------------------------------------
>SNPs
-----------------------------------------------------------------------S--------
----------------------S--------S---------------S--------------------------------
---------S-----------------------------S---------------------------S------------
-------------------S-----S------------------------------------------------------
-----------------S--------------------------------------------------------------
------S-----------------------------S----------------------------------S--------
--SS--S------------------------------------------------------------S--------S---
-----------------S--S-S---SS----------------------------------------------S-----
--------------------------SSSSS-----------S--S------S--S------------------------
--------S---S--------S---------------------S--SSS---------------------------S---
---------------------------------------------------------S----------------------
---S--------------------------------------------------------------------S-SS----
-----------------------------S---S----S--S-S--------------------------------S---
-S------S--S--------------------------------------------------------------------
------------------------------------------------------------------------S-------
--------------------------------------------------------------------S---S---S-SS
SSSSSS--------------------------S----------S------------------------------------
----------------------------------------------------------------------S---------
---------------SS---------------------S---------------S----------SS-------------
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----------------------------------------------------------------S---------------
-----------------S--SSS-SSSSSS--------------------------------------------------
--------------------SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS-----------S-------
--------------------SSSSSS---------------------------S--------------------------
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-------------------------------------------------------------S-------S----------
------------------------------S---------------------------S-------S-------------
------------------S-S---------S----S----------------S--------------S------------
---------S-------S-----------------------S-----S---SSSS--SSS--------------------
---------------------S------S-----S---S-----------------S-----------------------
-S------------S-S---------------------------------S------S--S--------S---------S
--------S-------S------------------------S-S---------SSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
>forward_956
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--------------------------------------------------------GGTTTCGGTTTCGGACTTGC----
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>reverse_2622
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-------------------------------------------------------------AAGGCGTGGTAGAAAGGTG
G---------------------------------------------------
