>input_sequence_71573
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----------------------------------ATGGTTCGCATCACTGCCATGGACCAGCTGGAGGGGGAGGAGGTGG
TCGTCAGGGCGC------------CGGCGTCCGGCGGGGTGAGGAGGGCCGGGGAGCCGGAGAGGCTGGCGCAGTGCCCC
TGCCCGCGCTGCGAGTCCACAGACACCAAGTTCTGCTACTACAACAACTACAACCTCTCGCAGCCGCGCCACTTCTGCAA
GGGCTGCCGCCGCTACTGGACGCGCGGGGGCGCGCTCCGCAACGTGCCCGTCGGCGGCGGCACGCGCAAGCCCAACGGCA
GCCCCGCCGCCGTCCGCCGCAAGCGCCCCTCCCACTCCCACTCCCACCA---------------CGCCGCCGCCTCCTCC
CAGGCCGCGCCGGTCGTCCCGCTCTCGGTCTCCGCGCCCGCGCCGCTCCCGCTGCCGCTGCTCCC------GCCGCCGCC
GCAGCCGCAGCAGTACGAGCTGACCTTCCTGCCGCCGTCCCTTTCGGCGGTGGACCCCGACCGCCGCCTGCTCGACCTCG
GCGGCAGCTTCAGCTCCCTGCTCGCGCCGCCCGCGCCGCTGCTGCCCAACTTCGCCACCAGTTTCATGTTTGGCGGCGCC
GGCGCGGGGATGGCGATGGCCCACGCTCACGTCCCTGCTCTGCCGCAGCAGGCGCCGGGGGTGTCGCAGGCGCTGCCGGA
CGGCTTCTGGGGCATGGGGTGGCCGGACCTGTCCATCTAG----------------------------------------
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>chr3D_1_TraesCS3D01G108600
AAAACTGATCCTAGACTGATGTGTTGAAATAATAATTAGACCCTATGCCTAGCTTGTTGATGATGGCAAAACATGAGGAG
GATTGGTCACCAAGGCATCCCGCAATTTCGCAGCGTGTGACTCACCTGACCTGACCCGACCCGACCCGTTTGATGCAGAC
CGTTGCACCACTCCTACTG--------------------CACAGCACAGCAAGGAGTAGCCTCGGTCCAGCCGACATGTA
CCGATCAACATCGGTCTAGATTCATCGCTCCGAGCTGCTGCAACGAAAGTTCACCAACAGTCAAGAGGAAGAAACT----
-------------------------TGCCATG--CACTTGTA--------CATGTGCAGTTCTACGAGAAACTAAACGGA
ATGGGGGTTAAAAATAACAACTG-----------------------------CACAAAAAGAGTAACCAGATGTTTCGTG
TTTGCGCTATTCA----CATTATTGCAAT---CTACATGAATGCCCAACGTTACTTTGTCCTGCATGCTCCGACGTGCGA
GCTGCTTGGCAATGCCCGGTCCCCAGAGCA------AACCACGCAGAGGATAGAGAG------AGAGAGAGATGAACAGG
AGAGGGAATCAAAGGGTGCAGGGAGGGTCAGATAGATAGGTCAGGGCTGCAGCAAGATGCCCAGCCGCATGCAG------
---GATGCCACCTCTCGTCTTTGACTGGAGTCTCTCTCTGAGATGCTGAGCACCGCCGGTCGGCACGGCAGGGCGAGCAA
CGGATCGCCCGTCCGGGACAAACCACAGCCTT-TCGCTCACCGCTGCTGCGCCCTTGTCCGTTTCCCCAGAATAGAAGTC
TCAGACCCCCACTCCTGTTCAAACTGCCCCTCCCCTGCCACCCCACCCCACCCCACCCCACCAGAGCCGCTGCTGCTTCC
CGTCGTACTCCCACTGTCGTCCTGCACCCCCC------------------ACCCCACCACTTCCATTGTCTTCTTCCTGC
TCCCCCCGCTACATATTGGCTCACCGTCCCTCGCCTTCTTCTTGCAAGCTTACCATCATCCAGGAGT-------------
------GCTTAGGTTGTGTAGGTTTCTTGGAGCGATGGTTCGCATCACTGCCATGGACCAGCTGGAGGGGGAGGAGGTGG
TCGTCAGGGCGC------------CGGCGTCCGGCGGGGTGAGGAGGGCCGGGGAGCCGGAGAGGCTGGCGCAGTGCCCC
TGCCCGCGCTGCGAGTCCACAGACACCAAGTTCTGCTACTACAACAACTACAACCTCTCGCAGCCGCGCCACTTCTGCAA
GGGCTGCCGCCGCTACTGGACGCGCGGGGGCGCGCTCCGCAACGTGCCCGTCGGCGGCGGCACGCGCAAGCCCAACGGCA
GCCCCGCCGCCGTCCGCCGCAAGCGCCCCTCCCACTCCCACTCCCACCA---------------CGCCGCCGCCTCCTCC
CAGGCCGCGCCGGTCGTCCCGCTCTCGGTCTCCGCGCCCGCGCCGCTCCCGCTGCCGCTGCTCCC------GCCGCCGCC
GCAGCCGCAGCAGTACGAGCTGACCTTCCTGCCGCCGTCCCTTTCGGCGGTGGACCCCGACCGCCGCCTGCTCGACCTCG
GCGGCAGCTTCAGCTCCCTGCTCGCGCCGCCCGCGCCGCTGCTGCCCAACTTCGCCACCAGTTTCATGTTTGGCGGCGCC
GGCGCGGGGATGGCGATGGCCCACGCTCACGTCCCTGCTCTGCCGCAGCAGGCGCCGGGGGTGTCGCAGGCGCTGCCGGA
CGGCTTCTGGGGCATGGGGTGGCCGGACCTGTCCATCTAG--TCCCCATCAAGCTCCCCACCGGCCAGCGCGGGCATCGC
CAAGATCATGGATGACGACGGCCAAGCTCTAATCGATCTAGCATTTTCTTTCCTCTAATTAGGTGCATGCTCAGTTGACG
GTAGTTTGTTA----GTGTTACTACTGCA----TCCATCCATCCATCCTCCATGGTTATCTTTTTGAGAGCTTTCGAAGC
GGTCTTGATCAATCAGTCAGAGCTAGCGATAAGTATTTTGTTAGTTAGGTTCGTTCAGGAGAAAATGGTGTGGTTATGAG
AGTCAATCTGAGGATGGTGGTGAAGAAACTCATGTTAATCCGTGTGTTTTGTACTTAATCCGCGACTGCA---------T
GCAGTCTGCTGATGGTGCCAAGCGTAGAACTGAAACTG------ATGGAACGATCAACGATGGTAGCTTATTGATGTTGA
AAATGCAAATCTTGTTTCTTTGTGATCTCACTAGTTGAATGTCCTTAATTATAGCACTTCATTATTGTCCCTATTTCTTT
GTTGATGCGATTTGAGGTAATAGCACCGCAGGTCCTTAAACTTGTTCTTCATGTGATGGTTTGGTCCTCAAACTTGCAAA
AGTGAATTATTTGATCCTGCAACTTGTTCTCAAGGTGCACATTTGGTTCC------------------------------
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-------------------------TAGCCTCGCCTAGACGCACCCATGCCAGCTGCTCGACGGCGGGGACGCGCGGAGG
GACACGTCGGCCGAAGTGCCTAGGCTCAGCCGGGGGCGGGACGGTGGCGCCGTCGCTTGGCGGCGAGAAGACGGCTGGGA
GGTACTCATCGGTGTGGCACGCGAAGGTGGAGCGGCTGAAGTGCGTCACCAGCCTCTGCCTGCCCTGCAAAGACCAACGG
CTCATGGTGCCAGAGAACAAACCGCATGAATGCATGCATGCATCGACGACACGGAGGAGGCTTGTGCGTGCGTGCACGTT
CGTTACCTGTATGTACGC-----GGCGCCGATGTTGATGATCTTGCAGCTGCCGAGCGACCGGTTCCAGCCACGTCCGTG
CAGGG
>chr3A_1
AAAACCGATCCTAGACTGATGTGTGGAAATAATAATGAGACCCTATGCCTGGCTTGTTGATGATGGCAAAACATGAGCAG
GATTGGTCTCCAAGGCCTCCAGCAGTTTCGCAGCGTGTGACTCACCTGACCTGACCGGC----------TTGACGCAGAC
CGTTGCACCACTCCTGGTAGTCAATAGAGCTAGCGCTGCCACTGCCCAGCTAGGAGTAGCCTCGATCAAGCCGCCGTGTG
CCGATCAACATCGGTCTGGATTCGTCGCTCCGGGACGCTGCAACGAAAGTTCACCAACAGTCAAGAGGAAGAAACTTGCC
ATGCGAACTCTAAAAAAAAGAAACTTGCCATG--CACTTGTGCATTGATCCATGTGCAGTTCTACGAGAAACAAAACGGA
ATGGGG-TTAAAAATAGTATAATTA------------------------CTATACAAAAAGAGCAGCCAGATGTTTCGTG
TTTGTGCTACTCACAATCATTGTTACAAT---CTACAGGATGTAAATAATGCTCA-----------------ACGTACGA
GCTGCTCGGCAATGCCCGGTCCCCAGAGCCAGGCCGAACCACGCAGAGGAGAGGATAGAGATTAGAGAGAGATGAACAGG
AGAGGGAATCAAACGGTGCAGGGGGAGTCAGACAGATAGGTCAGGGCTGCAGCAAGATGCCCAGCCGCATGCAG------
---GATGCCACCTCTCGTCTTTGACTGGAGT----GTCTGGGATGCTGAGCTCCGGCGGTCGGCACGGCAGGGCGAGCAA
CGGATCGCCCGTCCGGGACAAACCACAGCCTTTTCGCTCGCCGCCGCTGCGCCCTTGTCCGTTTCCCCAGAATAGAAGTC
TCAGACCCCCACTCCTGTTCAAACTGCCCCTCCGCCTGTCAGCTTG-CTCTGCCAACCCACCAGAGATGCTGCTGCTTCC
CGTCGTACTCCCACTGTCGTCCTGCACCG-CC------------------ACCCCACCACTTCCATTGTCTTCTTCCTGC
ACCCCCCGCTACATATTGGCTCACCGTCCCGCGCCATCTTCTTGCAATCTCAGTTACCGGCAAGTGAGAGCTCGATCGGT
CGTCCGGCTTAGGTTGTTCAGGTTTCTTGGAGCGATGGTTCGTATTACGGCCATGGACCAGCTGGAGGCGGAGGAGGTGG
TGGTCAGGGCGC---------CGGCGGCGTCCGGCGGGGTGAGGAGGGCCGGGGAGCCGGAGAGGCTGGCGCAGTGCCCC
TGCCCGCGCTGCGAGTCCACCGACACCAAGTTCTGCTACTACAACAACTACAACCTCTCGCAGCCGCGCCACTTCTGCAG
GGGCTGCCGCCGCTACTGGACGCGCGGGGGCGCGCTCCGCAACGTGCCCGTCGGCGGCGGCACGCGCAAGCCCAACGGCA
GCCCCGCCGCCGTCCGCCGCAAGCGCCCCTCCCACTCCCACTCCCACTCCCACCACGCCGTCCCCGCCGCCGCCGCCTCT
CAGGCCGCGCCGGTCGTCCCGCTCTCGGTCTCCGCGCCCGCGCCGCTCCCGCTGCCGCTGCTCCAGCCGCAGCCGCAGCC
GCAGCCGCAGCAGTACGAGCTGACCTTCCTGCCGGCGTCCCTTTCGGCGGTGGACCCCGACCGCCGCCTGCTCGACCTCG
GCGGCAGCTTCAGCTCCCTGCTCGCGCCGCCCGCGCCGCTGCTGCCCAACTTCGCCACCAGCTTCGTGTTCGGCGGCGCC
GGCGCGGGGATGGCAATGGCCCACGCTCACGTCCCTGCTCTGCCGCAGCCGGCGCCGGTGGCATCCCAGGCGCTGCCGGA
GAGCTTCTGGGGCATGGGGTGGCCGGACCTGTCCATCTAGAGTCTCCATCAACCTCCCCACCGGCCGGCGCGCGCATCGC
CAAGATCATGGATGACGGCGGCCAAGCTCTAATCGATCTAGCATTTTCTTTC---------------------GTTGACG
GTAGCTTGTTAATTAGTGTTACTTCTGCA----TCCATCCATCCATCCTCCATGGTTATCTTTTTGAGAGCTTTCGAAGC
GATCTTGATCAATCCGTCAGAGCTAGCGATGAGTATTTTGTTAGTTAGGTTCGTTCAGGAG-AAATGGTGCGGTTATGAG
AGTCGATCTGAGGATGGTGGTGAAGATACTCATGTTAATCCGTGTGTTTTGTACTGTGTCCGCGACTGCATGCATGGTCT
GCAGTCTGCTGATGGTGCCAAGCGTAGAACTGAAACTGGAACTGATGGAACGATCGACGATGGTAGCTTATTGATGTTGA
AAATGCAAGTCTTGTTTCCTT-TGATTTCACTAGTTGAATGCCCTTCATTATAGCACTTCATTATTGTCTCCATTTCTTT
GTCGATGCGATTT-------------------------------------------------------------------
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>chr3B_12
-----------TAGACCGATGTGTTGAAATAATGAA---ACCCTATGCCTAGCTTGTTGATGATGGCAAAACATGAGGAG
GATTGTTCACCAAGGCATCCCGCAATTTCGCAGCGTGTGACTCACCTGACCTGACCAGACACGACCCGTTTGACGCAGAC
CGTGGCACCACTCCTGGTAGTCAATAGAGCTAGCGCTGCTACTGCACAGCTAGGAGTAGCCTCGATCCAGCCGACATGTA
CCGATCAACATGGGTCTGGATTCATCGCTCCGTGCAGCTGCAACGAAAGTTCACCAACAGTCAAGAGGAAGAAACT----
-------------------------TGCCATGCACACTTGTACATTGATCCATGTGCGTTTCTACGAGAAATAAAACGGA
ATGGGG-TTAAAAATAGTAACTACGCAGAAAGAGTAAGCTTTTGTAATTCTACACAAGAAGAGTAACCAGATGTTTCGTG
TTTGTGCTATACA----CATTATTGCAACCTACTACATGAATGATCAACGTTAATTTGTCCTGCATACTCCTACGTACGA
GCTGCTTGGCAATGCCCGGTCCCCAGAGCCAGACCGAACCACGCAGAGGAGAGGAT-------AGAGAGAGATGAACAGG
AGAGGGAATCAAACGGTGCAGGGAGGGTCAGATAGATAGGTCAGGGCTGCAGCAAGATGCCCAGCCGCATGCAGCAGCAG
CCAGATGCCACCTCTCGTCTTTGACTGGAGT----CTCTGAGATGCTGAGCACCGCCGGTCGGCACGGCAGGGCGAGCAA
CGGATCGCCCGTCCGGGACAAACCACAGCCTTTTCGCTCGCCGCTGCTGCGCGCTTGTCCGTTTCCCCAGAATAGAAGTC
TCAAACCCCCACTCCTGTTCAAACTGCCC---------TCCGCCTG-CCACCCCACCCCACTAGAGCC---GCTGCTTCC
CGTCGTACTCCCACTGTCGTCCTGCACCG-CCACCCCCACCCCCACCCCCACCCCACCACTTTCATTGTCTTCTTCCTGC
TTCCCCCGCTACATATTGGCGCGCCTTCCCGCGGCTTCCTCTTGCAAGC----TTACAAGAAAGCGAGAGCTCGATCCAT
CGTCCAGCTTAGGTTGTTCAGGTTTCTTGGAGCGATGGTTCGCATTACTGCCATGGACCAGCTGGAGGCGGAGGAGGTGG
TCGTCAGGGCGCCGGCGCCCACGGCGGCGTCCGGCGGGGTGAGGAGGGCCGGGGAGCCGGAGAGGCTGGCGCAGTGCCCC
TGCCCGCGCTGCGAGTCCACCGACACCAAGTTCTGCTACTACAACAACTACAACCTCTCGCAGCCGCGCCACTTCTGCAA
GGGCTGCCGCCGCTACTGGACGCGCGGGGGCGCGCTCCGCAACGTGCCCGTCGGCGGCGCCACGCGCAAGCCCAACGGCA
GCCCCGCCGGCGTCCGCCGCAAGCGCCCATCCCACTCCCACTCCAACTCCCACCACGCCGC------------CTCCTCT
CAGGCCGCGCCGGTCGTCCCGCTCTCGGTCTCCGCGCCCGCGCCGCTCCCGCTGCCGCTGCTCCCGCCGC---CGCAGCC
GCAGCCGCAGCAGTACGAGCTGACCTTCCTGCCGCCGTCCCTTTCGGCGGTGGACCCCGACCGCCGCCTGCTCGACCTCG
GCGGCAGCTTCAGCTCCCTGCTCGCGCCGCCCGCCCCGCTGCTGCCCAACTTCGCCACCAGCTTCGTGTTTGGCGGCGCC
GGCGCGGGGATGGCGATGGCACACGCTCACGTCCCTGCTCTGCCGCAGCCGGCGCCGGTGGTGTCGCAGGCGCTGCCGGA
GAGCTTCTGGGGCATGGGGTGGCCGGACCTGTCCATCTAG--TCTCCTTCAACCTCCCCACCGGCCGGCGTGCGCATCGC
CAAGATCATGGATGGCGACGGCCAAGCTCTAATCGATCTAGCATTTTCTTTCCTTTAATTAGGTGCATGTTCAGTTGACG
GTAGCTTTG---TTAGTGTTACTACTGCATCCGTCCATCCATCCATCCTCCATGGTTATCTTTTTGAGAGCTTTCGAAGC
GGTCTTGATCAATCAGTCAGAGCTAGCGATAAGTATTTTGTTAGTTGGGTTCGTTCAGGAG-AAATGGTGTGGTTATGAG
AGTCAATCTGAGGATGGTGGTGAAGATATTCATGTTAATCCGTGTGTTTTGTA-----TCCGCGACTGTA---------T
GCAGTCTGCTGATGGTACCAAGCGTAGAACTGAAACTG------ATGGAACGAT-------GTTAGCTTATTCACGTTGA
AATGCAAAATCTTGATTCTTTGTGATTTCATTAGTTGAAT----------------------------------------
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>chr3B_2199
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----------TTTGAGGTAATAGCACCCCAGGTCCTTGAACTTGTCCTTCATGTGATGGTTTGGTCCTCAAACTTGTAAA
AGTGGATTATTTGGTCCTGGAACTTGTTCTCAAGGTGCATATTTGGTCCTGAGCCAATCAACAACAGGCAAGTGGAGCCA
GCTGGGCGGAGCCGGTCAACACCGCAATTTTTGCATTTAGCCCCTTTCTGTTTATCGAAATTAACCCGCGGGGTACCTCT
GCTGGAGTGGATAGCTAGCTCTCTGTAGCCTCGCCTCGACCCACCCATGCCAGCTGCTCGACAACGGGGACGCGCAGAGG
GACACGTCGACCGAGGTGCCTAGGCTCGGCCGGGGACGGGACGGTGGCGCCGTCGTGTGGCGGCAAGAATACGGCCGGGA
GGTACTCATCGGTGTGGCACACGAAGGTGGAGCGGCTGAAGTGCCTCACCAGCCTCTGCCTGCCCTGTAAAGACCAACGG
CTCACGGTGCCAGAGAACAAACCGCATGAATGCATGCATGCATCGACGACACGGAGGAGGCTTGTGCGTGCGTGCACGTT
CATTACCTGTATGTACTGTACGTGGCGCCGATGTTGATGATCTTGCCGCTCCGGGT-GACCGGTTCCAGCCACGTCCGTG
CAGGG
>SNPs
-----S------------------------------S-------------------------------------------
--------------------------------------------------------S---S------------S------
---------------SS-S-----------------------S-------S-------------S---------------
-----------------S--------------S--S--------------------------------------------
------------------------------------------------------------------------S-------
------S---------SS----S---------------------------------------------------------
----S--------------------------------------SS---------------------S----S----S---
-----------------------------S--------------------S--SSSS-----------------------
-------------S------------------------------------------------------------------
-------------------------------SSSS---------------------------------------------
---------------------------------------S----------------------------------------
---------------------------------S-SSSSS-S--SSS---------------------------------
----------------------------SS--------------------------------------------------
------------------------------S-------------------S-SSSS--SS--S-S-S-------------
-----------------SS--------------------------S----------------------S-----------
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--------------------S-----------------------------------------------------------
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-----------------------------------------------SS------------------------------S
----------------------------------------------------------------------------S---
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-------------------------------------------------------------S---S--------------
-------------------------------------------------S--------S---------------------
SS------------------------------------------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------------------------------
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------------------------------------S---S---------------------SS-----------S----
---------S----S------------S-------S-------------------SS-------S----S-----S----
--------------------S-----------------------S----------------------S------------
----S---------------------------------------------------------------------------
-S--------------SS----------------------------S---S-S-SSS-----------------------
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>forward_1071
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-----------CATATTGGCTCACCGTCCCT-------------------------------------------------
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>reverse_2796
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---------------------------------------------------------------------------TGGGA
GGTACTCATCGGTGT-----------------------------------------------------------------
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