>input_sequence_63793
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----------------------CACCCCACCACTTTCATTGTCTTCTTCCTGCTTCCCCCGCTACATATTGGCGCGCCTT
CCCGCGGCTTCCTCTTGCAAGC----TTACAAGAAAGCGAGAGCTCGATCCATCGTCCA-----GCTTAGGTTGTTCAGG
TTTCTTGGAGCGATGGTTCGCATTACTGCCATGGACCAGCTGGAGGCGGAGGAGGTGGTCGTCAGGGCGC---CGGCGCC
CACGGCGGCGTCCGGCGGGGTGAGGAGGGCCGGGGAGCCGGAGAGGCTGGCGCAGTGCCCCTGCCCGCGCTGCGAGTCCA
CCGACACCAAGTTCTGCTACTACAACAACTACAACCTCTCGCAGCCGCGCCACTTCTGCAAGGGCTGCCGCCGCTACTGG
ACGCGCGGGGGCGCGCTCCGCAACGTGCCCGTCGGCGGCGCCACGCGCAAGCCCAACGGCAGCCCCGCCGGCGTCCGCCG
CAAGCGCCCATCCCACTCCCACTCCAACTCCCACCACGCCGC------------CTCCTCTCAGGCCGCGCCGGTCGTCC
CGCTCTCGGTCTCCGCGCCCGCGCCGCTCCCGCTGCCGCTGCTCCCGCCGC---CGCAGCCGCAGCCGCAGCAGTACGAG
CTGACCTTCCTGCCGCCGTCCCTTTCGGCGGTGGACCCCGACCGCCGCCTGCTCGACCTCGGCGGCAGCTTCAGCTCCCT
GCTCGCGCCGCCCGCCCCGCTGCTGCCCAACTTCGCCACCAGCTTCGTGTTTGGCGGCGCCGGCGCGGGGATGGCGATGG
CACACGCTCACGTCCCTGCTCTGCCGCAGCCGGCGCCGGTGGTGTCGCAGGCGCTGCCGGAGAGCTTCTGGGGCATGGGG
TGGCCGGACCTGTCCATCTAG--TCTCCTTCAACCTCCCCACCGGCCGGCGTGCGCATCGCCAAGATCATGGATGGCGAC
GGCCAAGCTCTAATCGATCTAGCATTTTCTTTCCTTTAATTAGGTGCATGTTCAGTTGACGGTAGCTTTG---TTAGTG-
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>chr3B_1_TraesCS3B01G125100
TCGTCATGCATCTCCATTAAACTGCGGCCGAGGAAGGTTATCGACGGTGTGAAAAGAACACTCATAGACCGATGTGTTGA
AATAATGAA---ACCCTATGCCTAGCTTGTTGATGATGGCAAAACATGAGGAGGATTGTTCACCAAGGCATCCCGCAATT
TCGCAGCGTGTGACTCACCTGACCTGACCAGACACGACCCGTTTGACGCAGACCGTGGCACCACTCCTGGTAGTCAATAG
AGCTAGCGCTGCTACTGCACAGCTAGGAGTAGCCTCGATCCAGCCGACATGTACCGATCAACATGGGTCTGGATTCATCG
CTCCGTGCAGCTGCAACGAAAGTTCACCAACAGTCAAGAGGAAGAAACT-----------------------------TG
CCATGCACACTTGTACATTGATCCATGTGCGTTTCTACGAGAAATAAAACGGAATGGGG-TTAAAAATAGTAACTACGCA
GAAAGAGTAAGCTTTTGTAATTCTACACAAGAAGAGTAACCAGATGTTTCGTGTTTGTGCTATACA----CATTATTGCA
ACCTACTACATGAATGATCAACGTTAATTTGTCCTGCATACTCCTACGTACGAGCTGCTTGGCAATGCCCGGTCCCCAGA
GCCAGACCGAACCACGCAGAGGAGAGGAT-------AGAGAGAGATGAACAGGAGAGGGAATCAAACGGTGCAGGGAGGG
TCAGATAGATAGGTCAGGGCTGCAGCAAGATGCCCAGCCGCATGCAGCAGCAGCCAGATGCCACCTCTCGTCTTTGACTG
GAG----TCTCTGAGATGCTGAGCACCGCCGGTCGGCACGGCAGGGCGAGCAACGGATCGCCCGTCCGGGACAAACCACA
GCCTT-TTCGCTCGCCGCTGCTGCGCGCTTGTCCGTTTCCCCAGAATAGAAGTCTCAAACCCCCACTCCTGTTCAAACTG
CCC---------TCCGCCTG-CCACCCCACCCCACTAGAGCC---GCTGCTTCCCGTCGTACTCCCACTGTCGTCCTGCA
CCGCCACCCCCACCCCCACCCCCACCCCACCACTTTCATTGTCTTCTTCCTGCTTCCCCCGCTACATATTGGCGCGCCTT
CCCGCGGCTTCCTCTTGCAAGC----TTACAAGAAAGCGAGAGCTCGATCCATCGTCCA-----GCTTAGGTTGTTCAGG
TTTCTTGGAGCGATGGTTCGCATTACTGCCATGGACCAGCTGGAGGCGGAGGAGGTGGTCGTCAGGGCGC---CGGCGCC
CACGGCGGCGTCCGGCGGGGTGAGGAGGGCCGGGGAGCCGGAGAGGCTGGCGCAGTGCCCCTGCCCGCGCTGCGAGTCCA
CCGACACCAAGTTCTGCTACTACAACAACTACAACCTCTCGCAGCCGCGCCACTTCTGCAAGGGCTGCCGCCGCTACTGG
ACGCGCGGGGGCGCGCTCCGCAACGTGCCCGTCGGCGGCGCCACGCGCAAGCCCAACGGCAGCCCCGCCGGCGTCCGCCG
CAAGCGCCCATCCCACTCCCACTCCAACTCCCACCACGCCGC------------CTCCTCTCAGGCCGCGCCGGTCGTCC
CGCTCTCGGTCTCCGCGCCCGCGCCGCTCCCGCTGCCGCTGCTCCCGCCGC---CGCAGCCGCAGCCGCAGCAGTACGAG
CTGACCTTCCTGCCGCCGTCCCTTTCGGCGGTGGACCCCGACCGCCGCCTGCTCGACCTCGGCGGCAGCTTCAGCTCCCT
GCTCGCGCCGCCCGCCCCGCTGCTGCCCAACTTCGCCACCAGCTTCGTGTTTGGCGGCGCCGGCGCGGGGATGGCGATGG
CACACGCTCACGTCCCTGCTCTGCCGCAGCCGGCGCCGGTGGTGTCGCAGGCGCTGCCGGAGAGCTTCTGGGGCATGGGG
TGGCCGGACCTGTCCATCTAG--TCTCCTTCAACCTCCCCACCGGCCGGCGTGCGCATCGCCAAGATCATGGATGGCGAC
GGCCAAGCTCTAATCGATCTAGCATTTTCTTTCCTTTAATTAGGTGCATGTTCAGTTGACGGTAGCTTTG---TTAGTGT
TACTACTGCATCCGTCCATCCATCCATCCTCCATGGTTATCTTTTTGAGAGCTTTCGAAGCGGTCTTGATCAATCAGTCA
GAGCTAGCGATAAGTATTTTGTTAGTTGGGTTCGTTCAGGAG-AAATGGTGTGGTTATGAGAGTCAATCTGAGGATGGTG
GTGAAGATATTCATGTTAATCCGTGTGTTTTGTA-----TCCGCGACTGTA---------TGCAGTCTGCTGATGGTACC
AAGCGTAGAACTGAAACTG------ATGGAACGAT-------GTTAGCTTATTCACGTTGAAATGCAAAATCTTGATTCT
TTGTGATTTCATTAGTTGAATTTATACCAATTAT-----------TTGGCCCTATTACTTTGTCGATGCGATTTTGCAGC
TCTAGATTTGACAATTTGCTCAAGATTTTCCAACGGTTCACGTTAGATTAACTAACTCTGTTTTCGGATCAATGGCACGA
CGTACAGTGTG--TTTTGGTATTGCTTTCTTTTG-CCGTTCTTCCCCTTTCCTGCGCAAAAGAAATCTTTGAGGTACCAG
ATCTACGAGGATTGAGGACCATCTATATTTGGGGAAGGTATCGCCAGCAGCAAAAATTAGTGCTCCACTGTTTGTCCATT
TCCAGCACGCGAAGCCTATTTGGGAACCCTTCTGGCCAGCCCATGTGCGGGTTGGGACGCCTACTGTTTTTTTTAATAAT
TCGGGATATCAAGAAGTTCTAAATTTCAAAAAAGTTTCAAATTTTGAAACAAAATATTCATGAATTCAAAAAATGTTCAT
GGTTTAAGAAAATGTGCATGAATTTAAAAGATGTTAAAATTTTAAAAAATGTTCAGGATTTAAGAGAATGTTCATGGAGT
TTTTTAAAATGTTCACAAACTTCAAAAGGTTCATCATTTTACAAAAGCGTGAATTTAAAACATGTTCATCATTCAAAAAA
GATTAGGATTTGAAAATATACTCATGAATTCAAAAAATGTTCATGATTTAAGAGAATGTTCACAAATTTTAAAAATGTTC
A
>chr3D_65
----------------------------------------------------------------TAGACTGATGTGTTGA
AATAATAATTAGACCCTATGCCTAGCTTGTTGATGATGGCAAAACATGAGGAGGATTGGTCACCAAGGCATCCCGCAATT
TCGCAGCGTGTGACTCACCTGACCTGACCCGACCCGACCCGTTTGATGCAGACCGTTGCACCACTCCTACTG--------
------------CACAGCACAGCAAGGAGTAGCCTCGGTCCAGCCGACATGTACCGATCAACATCGGTCTAGATTCATCG
CTCCGAGCTGCTGCAACGAAAGTTCACCAACAGTCAAGAGGAAGAAACT-----------------------------TG
CCATG--CACTTGTA--------CATGTGCAGTTCTACGAGAAACTAAACGGAATGGGGGTTAAAAATAACAACTG----
-------------------------CACAAAAAGAGTAACCAGATGTTTCGTGTTTGCGCTATTCA----CATTATTGCA
AT---CTACATGAATGCCCAACGTTACTTTGTCCTGCATGCTCCGACGTGCGAGCTGCTTGGCAATGCCCGGTCCCCAGA
GCA------AACCACGCAGAGGATAGAGAG------AGAGAGAGATGAACAGGAGAGGGAATCAAAGGGTGCAGGGAGGG
TCAGATAGATAGGTCAGGGCTGCAGCAAGATGCCCAGCCGCATGCAG---------GATGCCACCTCTCGTCTTTGACTG
GAGTCTCTCTCTGAGATGCTGAGCACCGCCGGTCGGCACGGCAGGGCGAGCAACGGATCGCCCGTCCGGGACAAACCACA
GCCTT-T-CGCTCACCGCTGCTGCGCCCTTGTCCGTTTCCCCAGAATAGAAGTCTCAGACCCCCACTCCTGTTCAAACTG
CCCCTCCCCTGCCACCCCACCCCACCCCACCCCACCAGAGCCGCTGCTGCTTCCCGTCGTACTCCCACTGTCGTCCTGCA
CC-----------------CCCCACCCCACCACTTCCATTGTCTTCTTCCTGCTCCCCCCGCTACATATTGGCTCACCGT
CCCTCGCCTTCTTCTTGCAAGCTTA------------------------CCATCATCCAGGAGTGCTTAGGTTGTGTAGG
TTTCTTGGAGCGATGGTTCGCATCACTGCCATGGACCAGCTGGAGGGGGAGGAGGTGGTCGTCAGGGCGC---CGGC---
---------GTCCGGCGGGGTGAGGAGGGCCGGGGAGCCGGAGAGGCTGGCGCAGTGCCCCTGCCCGCGCTGCGAGTCCA
CAGACACCAAGTTCTGCTACTACAACAACTACAACCTCTCGCAGCCGCGCCACTTCTGCAAGGGCTGCCGCCGCTACTGG
ACGCGCGGGGGCGCGCTCCGCAACGTGCCCGTCGGCGGCGGCACGCGCAAGCCCAACGGCAGCCCCGCCGCCGTCCGCCG
CAAGCGCCCCTCCCACTCCCACTCCCACCA---------------CGCCGCCGCCTCCTCCCAGGCCGCGCCGGTCGTCC
CGCTCTCGGTCTCCGCGCCCGCGCCGCTCCCGCTGCCGCTGCTCCCGCCGC---CGC---CGCAGCCGCAGCAGTACGAG
CTGACCTTCCTGCCGCCGTCCCTTTCGGCGGTGGACCCCGACCGCCGCCTGCTCGACCTCGGCGGCAGCTTCAGCTCCCT
GCTCGCGCCGCCCGCGCCGCTGCTGCCCAACTTCGCCACCAGTTTCATGTTTGGCGGCGCCGGCGCGGGGATGGCGATGG
CCCACGCTCACGTCCCTGCTCTGCCGCAGCAGGCGCCGGGGGTGTCGCAGGCGCTGCCGGACGGCTTCTGGGGCATGGGG
TGGCCGGACCTGTCCATCTAG--TCCCCATCAAGCTCCCCACCGGCCAGCGCGGGCATCGCCAAGATCATGGATGACGAC
GGCCAAGCTCTAATCGATCTAGCATTTTCTTTCCTCTAATTAGGTGCATGCTCAGTTGACGGTAGTTTGTTA----GTGT
TACTACTGCA----TCCATCCATCCATCCTCCATGGTTATCTTTTTGAGAGCTTTCGAAGCGGTCTTGATCAATCAGTCA
GAGCTAGCGATAAGTATTTTGTTAGTTAGGTTCGTTCAGGAGAAAATGGTGTGGTTATGAGAGTCAATCTGAGGATGGTG
GTGAAGAAACTCATGTTAATCCGTGTGTTTTGTACTTAATCCGCGACTGCA---------TGCAGTCTGCTGATGGTGCC
AAGCGTAGAACTGAAACTG------ATGGAACGATCAACGATGGTAGCTTATTGATGTTGAAAATGCAAATCTTGTTTCT
TTGTGATCTCACTAGTTGAAT-----------------------------------------------------------
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>chr3A_65
----------------------------------------------------------------TAGACTGATGTGTGGA
AATAATAATGAGACCCTATGCCTGGCTTGTTGATGATGGCAAAACATGAGCAGGATTGGTCTCCAAGGCCTCCAGCAGTT
TCGCAGCGTGTGACTCACCTGA----------CCTGACCGGCTTGACGCAGACCGTTGCACCACTCCTGGTAGTCAATAG
AGCTAGCGCTGCCACTGCCCAGCTAGGAGTAGCCTCGATCAAGCCGCCGTGTGCCGATCAACATCGGTCTGGATTCGTCG
CTCCGGGACGCTGCAACGAAAGTTCACCAACAGTCAAGAGGAAGAAACTTGCCATGCGAACTCTAAAAAAAAGAAACTTG
CCATG--CACTTGTGCATTGATCCATGTGCAGTTCTACGAGAAACAAAACGGAATGGGG-TTAAAAATAGTATAATTA--
----------------------CTATACAAAAAGAGCAGCCAGATGTTTCGTGTTTGTGCTACTCACAATCATTGTTACA
AT---CTACAGGATGTAAATAATGCTCA-----------------ACGTACGAGCTGCTCGGCAATGCCCGGTCCCCAGA
GCCAGGCCGAACCACGCAGAGGAGAGGATAGAGATTAGAGAGAGATGAACAGGAGAGGGAATCAAACGGTGCAGGGGGAG
TCAGACAGATAGGTCAGGGCTGCAGCAAGATGCCCAGCCGCATGCAG---------GATGCCACCTCTCGTCTTTGACTG
GAGTG----TCTGGGATGCTGAGCTCCGGCGGTCGGCACGGCAGGGCGAGCAACGGATCGCCCGTCCGGGACAAACCACA
GCCTTTT-CGCTCGCCGCCGCTGCGCCCTTGTCCGTTTCCCCAGAATAGAAGTCTCAGACCCCCACTCCTGTTCAAACTG
CCCCTCCGCCTGTCAGCTTG-CTCTGCCAACCCACCAGAGATGCTGCTGCTTCCCGTCGTACTCCCACTGTCGTCCTGCA
CCG------------------CCACCCCACCACTTCCATTGTCTTCTTCCTGCACCCCCCGCTACATATTGGCTCACCGT
CCCGCGCCATCTTCTTGCAATCTCAGTTACCGGCAAGTGAGAGCTCGATCGGTCGTCCG-----GCTTAGGTTGTTCAGG
TTTCTTGGAGCGATGGTTCGTATTACGGCCATGGACCAGCTGGAGGCGGAGGAGGTGGTGGTCAGGGCGCCGGCGGC---
---------GTCCGGCGGGGTGAGGAGGGCCGGGGAGCCGGAGAGGCTGGCGCAGTGCCCCTGCCCGCGCTGCGAGTCCA
CCGACACCAAGTTCTGCTACTACAACAACTACAACCTCTCGCAGCCGCGCCACTTCTGCAGGGGCTGCCGCCGCTACTGG
ACGCGCGGGGGCGCGCTCCGCAACGTGCCCGTCGGCGGCGGCACGCGCAAGCCCAACGGCAGCCCCGCCGCCGTCCGCCG
CAAGCGCCCCTCCCACTCCCACTCCCACTCCCACCACGCCGTCCCCGCCGCCGCCGCCTCTCAGGCCGCGCCGGTCGTCC
CGCTCTCGGTCTCCGCGCCCGCGCCGCTCCCGCTGCCGCTGCTCCAGCCGCAGCCGCAGCCGCAGCCGCAGCAGTACGAG
CTGACCTTCCTGCCGGCGTCCCTTTCGGCGGTGGACCCCGACCGCCGCCTGCTCGACCTCGGCGGCAGCTTCAGCTCCCT
GCTCGCGCCGCCCGCGCCGCTGCTGCCCAACTTCGCCACCAGCTTCGTGTTCGGCGGCGCCGGCGCGGGGATGGCAATGG
CCCACGCTCACGTCCCTGCTCTGCCGCAGCCGGCGCCGGTGGCATCCCAGGCGCTGCCGGAGAGCTTCTGGGGCATGGGG
TGGCCGGACCTGTCCATCTAGAGTCTCCATCAACCTCCCCACCGGCCGGCGCGCGCATCGCCAAGATCATGGATGACGGC
GGCCAAGCTCTAATCGATCTAGCATTTTCTTTC---------------------GTTGACGGTAGCTTGTTAATTAGTGT
TACTTCTGCA----TCCATCCATCCATCCTCCATGGTTATCTTTTTGAGAGCTTTCGAAGCGATCTTGATCAATCCGTCA
GAGCTAGCGATGAGTATTTTGTTAGTTAGGTTCGTTCAGGAG-AAATGGTGCGGTTATGAGAGTCGATCTGAGGATGGTG
GTGAAGATACTCATGTTAATCCGTGTGTTTTGTACTGTGTCCGCGACTGCATGCATGGTCTGCAGTCTGCTGATGGTGCC
AAGCGTAGAACTGAAACTGGAACTGATGGAACGATCGACGATGGTAGCTTATTGATGTTGAAAATGCAAGTCTTGTTTCC
TT-TGATTTCACTAGTTGAATGCCCTTCATTATAGCACTTCATTATTGTCTCCATTTCTTTGTCGATGCGATTTTGGAGC
TCCGGA-TTGACCATTTGCTCAAGATTTTCCACCGGTTCAAAGTTGGATTAACGTTC---TTTTGGGATCAATGGCACGA
CGTACAGTGTCTATTTTGGTATTGGTTTCTTTTGGCCATTCTTCCCCTTATCTGTGCACAAAAGGAAATTGAGGCACCAG
ATCTATGAGGATTGAGGGCCAT----------------------------------------------------------
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>SNPs
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS-----S----------
------S-S-------------------------------------------------S---------------------
-----------------------------S---S----------------------S-----------------------
------------S---------------------------------------------------S---------------
-----S--S-----------------------------------------------------------------------
-----SS-----------------------SS------------S------------------------------SSSSS
SSSSSSSSSSSSSSSSSSSSSS--------S--------------------------------S----------------
-SSSS------------S--------S------------S----S-----------------------------------
-----S--------------------------------------------------------------------------
-----------------------------------------------SSSSSSSSS------------------------
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-------S------------------S------------------------------S----------------------
-----------------------------------S--------------------------------------------
---SSSSSSSSSSSSSSSS----------------S------------------S------------------S-S--S-
------S----S------------------SS-S---S------------------------------------------
-----------------------------------------------------------------------------SSS
SSSSSSSSS-----------------------------------------------------------------------
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----------------------------------------S-----------------------------S---------
---------S---------------S---------------S--------------------------------------
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---------------S----------------------------------------------------------------
-S------------------------------------------------------------------------------
----------------------------S----------------------S-----------------------S----
-----------------------------------S--------------S-----------------SS----------
----------SSSS------------------------------------------------------------------
---------------------------S----------------------------------------------------
---------S---------------------------------------S---------------------------S--
-------------------------------------------S---------S-S-------SSSS--------S----
-----------S---------SSSSSS--S-SSS--------------S-S-S---S-------------------S---
--SS--S-----S-------------------S-------SSS-S-SS-S-SSSSSSSSS----S---------------
----------S-------------S------------S-----------SS---S---S--S-SSSSS------S-----
-----S-----------S----SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
S
>forward_47
---------------------------CCGAGGAAGGTTATCGACGG---------------------------------
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>reverse_2091
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----------TCCGTCCATCCATCCATCCT--------------------------------------------------
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