>input_sequence_79599
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-------------------------------------------------------------------ATGGCGGCCAAGC
TGACCCAGGAGCAGGCGGACGAGTGCAAGGAGGTGTTCGACCTGTTCGACGGCGACGAGGACGGCCGCATCGCCGCCGGC
GAGCTGGTCACGGCGCTCCGCTCGCTGGGCCAGAACGTGGACGAGGCCGAGGCGCGGGGCTTCCTCGAGGACGCCGGCGC
GGGCGGCGCCGGCGCCGTCGCCATCGACCTCCCCACGTTCCTGGCCGTGGCCGCGCGCAAGGCCAACGCCGGCGTATCGG
CCAAGGGACTGGCCCAGTGCCTCGACGCGTTCGACGACGACGGGAGCGGCGTCATCCCCGCGGAGCAGCTGCGGCAGGTG
ATGCTCACCCACGGCGACCGGCTCACGGAGGAGGAGGCCGACGAGCTGGTCCGCAAGGCCGACCCCCGCGGCGAGGGCCG
CGTCCAGTGCAAGGAGCTCGTCAAGGTGCTCATGAACAACAAGTGA----------------------------------
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>chr1A_1_TraesCS1A01G308700
TGCTATGTTTTTTAAGGATACTGTTGCCTGTTGGGTAGTTGGTCGGGTTATCTATCTTGTAGCGGTGTAGTCTTGGGGGA
GCAGCATCGGAATTACTACCTGGTTTCTTTTGGTTGTGGCACTTATCTTG----------TTCGTCTTATCATGGAATTT
AGGGGCGTTGTGCAAATCTCGGTTTTTGCGCTGCAGTTTGCGTGTCTGCTTGGTTTGTGTTCAGCTCCAAAATGCTGGCC
GGAGTACATTGTATGGATTCCATTTGGCATGCTTGGACCTTCTGG---------AACTTCGGTGGTAGCTGTGATTTCTG
AACTGCGCTGGTGCAAATTGTCTT--GTACAGTTGTTGGACGACGGAACAGAACTCAAGTCGACAGCAAAACCAACAGCT
GCATTTGTCGGAATCTAAACAGGGATCCATATGATGGGGCCTGGTTAGCTCGAGATCCAGCTCCTGGCGCCGCGATTCCC
CGCTGTACTCTCTGGTGTTTTGCAACTTGTACC--ATCTTATGATTGAACGAAACCAAATGTGGTGGATGGCACGTCGCT
CTTGTGTGCCAACAATATGGCATGGAAGTGGTAATCATGCTATG------------------------------------
------CTATGATGATCAATTGTTGGGTACATAGTTGG----TTGGCGCCAGCTCGTTGAACTATTC---CTTTTCCCTT
TTCAACCTGTCCGTTGTTTTCATCAAAGCATAAGCCGTTGATATTTTTATCATAATACATCTTTTTCCGTTTTGAAAAAA
ACATCTTCACCATAAAAATGCCAAAATTGGCAGAGTTCAAC-TTGGTGTCATCTGTCATGTGCA----------------
-----------------GCGATTTGCTTCGGAGAATAACGAGAGAGGGAAAGTTGTCATTGCTTACGATCTCTCTTGATT
TTTGACCTGTCAAAAGGAAAGAAAAGCGACCTTCGCTAAAGTTGCTTCATCGTGACGAGCAGCCCGGACAGCAATTAGGG
CAATCAATCAGTCCATTTCTTTCCC-TCTCCCTCCAGCAGCTCGGCTCTCTCTGGTCTCTGCCCGCCATGGCGGCCAAGC
TGACCCAGGAGCAGGCGGACGAGTGCAAGGAGGTGTTCGACCTGTTCGACGGCGACGAGGACGGCCGCATCGCCGCCGGC
GAGCTGGTCACGGCGCTCCGCTCGCTGGGCCAGAACGTGGACGAGGCCGAGGCGCGGGGCTTCCTCGAGGACGCCGGCGC
GGGCGGCGCCGGCGCCGTCGCCATCGACCTCCCCACGTTCCTGGCCGTGGCCGCGCGCAAGGCCAACGCCGGCGTATCGG
CCAAGGGACTGGCCCAGTGCCTCGACGCGTTCGACGACGACGGGAGCGGCGTCATCCCCGCGGAGCAGCTGCGGCAGGTG
ATGCTCACCCACGGCGACCGGCTCACGGAGGAGGAGGCCGACGAGCTGGTCCGCAAGGCCGACCCCCGCGGCGAGGGCCG
CGTCCAGTGCAAGGAGCTCGTCAAGGTGCTCATGAACAACAAGTGATCGGCGAGCTTCTCTGATCTGATGCGTCGATCGA
TCGGCCGATCTGGGGACCGGTGAAGTGTTGTCCTCCGGTGAGGAAATGGTGCCATGTTTCTTGATTTGGTGATGTACTCC
TACTGGTTTTGCTGTAATATTGGATTG--GATGCGAATGCTCTGCATACGCGAAGTC---CTGGCTGCAATATGTATGCT
GCGTTTGTTTCGTTGTATGTATGTATTGTATGCATACACAAATTGCTTTAACGACGATTTTGCACATGTATC-AAAGACA
TTGCCAGCGCAAATCCGGTGCGCTGCTTCCTTGGTTTGGTTAGTGAAATCGGTAGGATTTGAAAATGGATATTTTTCGCA
CCCGGCCGTTTCAATT--------------------TACTTAGCATGTTTTTTTTACGGATTTACTTTGCATATTAGTAT
TGTGTCT-------------------------------------------------------------------------
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------------------TAAGTTGAACTACATAAATTTTAAAACAAAGTATAG-AAAAAATCATCAACATCTATAATAC
CAAATCAACACTATTGGATTCATCATTGAATACATTTTCACATCATATATATGTTTGTTACTGTACCACACATAAAGAAA
GAGGTAATACTACAT----GCATACATGATGGGTGAATGGACGGATGCATCATATAGTTAACAAGAGTGGGGAAGTATCT
TCCATGGTGAACCTCACTTCATTCATTTTCTTTGAAAATTACGAACTTCATTTGGCAGGCCTTCGTTGGAGGGGGTACCT
CATATCGAGGCTAGACTAGAAGTGGTGAATCACCGGCTTCTTCATCAGCCGGTGAATGTGCAGGGTACGTGTTGGAGCTA
GTTGGTCCCCT----CCCATTTGCTCTGGAAGGGATGGTGGGGTTTGAAGTGGACACTGAAAGTAGCAGTTGCATCAAGA
AATCACTCACTCTTCCGATGTGTGGACGGCGC---------------ACACACATGAGCCCGATCTCCAACACACTTTTG
AGTCCCCCGTCAAATTGGCCCCTCAGCCCTTTGTCAGCTGCATCGAGAATTGTATTGTTCGCTTGAC
>chr1D_8
-------TTTTTTAAG--TACTGTTGCCTGTTGGGTAGTTGGTCGGGTTATCT----TGTAGCGGTGTAGTCGT-GGGGA
GCAGCATCGGAAT---TACCTGGTTTCTTTTGGTTGTGGCACTTATCTTGCCTGTTAGGCTTCGTCTTATCATGGAATTT
AGGGGCTTTGTGCAAATCTTGG-TTTCGCCCTGCATTTTAAATGTCTGCTTGGTTTGTGTTAGCCGGA------------
--AGTACATTGTATGGATTTCATTTGGCATGCTTGGTTTCTGCGAACTTTGTACAACTTCGGTGGTA---GTGATCTCTG
AACTGCGCTGGAGCAAATTCGCCTTGGTACAGTTGTTGGACGACGAAACACAACTCAAGTCGACAGCGAATCCAACAGCT
GCATT---------------------------------------------------------------------------
---------------GTATTTGCAACTTGTACCACATCTTATGATTGATCGAAACCAAATGTGGTGGATGGCACGTC---
--------------------------------------GCTATG------------------------------------
------CTATGATGATCAATTGTTGGGCACA----TGG----TTGGCGCCAGCTCGTTGAACTATTATTCTTTTTCCCTT
TTCAACCTGTCAGTTGTTTACATCAAAGCATAAGCCGTTGATTTTTTTATCATAATATAAAT------------------
--ATCTTTACCATAAAGATGCTAAAATCGGCAGAGTTCAA-----------------------A----------------
-----------------GCGATTTGCTTCGGAGAATAACGAGAGAGGGAAAGTTGTCATTGCTTATGATCTCTCTTAATT
TTTGACCTGTCAAAAGAAAAGAAAAGCGACCTTCGCTAG-GTTGCTTCATCGTGACGAACAGCCCGGACAGCAATTAGGC
CAATCAATCAGTCCATTTCTTTCCCCTATCCCTTCAGCAGTTCAGCTCTCTCTGGTCTCTCCCCGCCATGGCGGCCAAGC
TGACCCAGGCGCAGGCGGACGAGTGCAAGGAGGTGTTCGACCTGTTCGACGGCGACGAGGACGGCCGCATCGCCGCCGGC
GAGCTGGTCACGGCGCTGCGCTCGCTGGGCCAGAACGTGGACGAGGCCGAGGCGCGGGGCTTCCTCGAGGACGCGGGCGC
GGGCGGCGCCGGCGCCG------TCGACCTCCCCACGTTCCTGGCCGTGGCGGCGCGCAAGGCCAACGCCGGCGTGTCGG
CCAAGGGCCTGGCCCAGTGCCTGGACGCGTTCGACGACGACGGGAGCGGGGTCATCCCCGCGGAGCAGCTGCGGCAGGTG
ATGCTCACCCACGGCGACCGGCTCACGGAGGAGGAGGCCGACGAGCTGCTCCGCAAGGCCGACCCCCGCGGCGAGGGCCG
CGTCCAGTGCAAGGAGCTCGTCAAGGTGCTCATGAACAACAAGTGATCCACGAGCTTCGCTGATC-----CATCGATCGA
TCCGCCGATCTGGGGACTGGTGGACTGTTG---TCGGGTGAGGACATGGTGCCATGTTTCTTGATTTCCTGATGTACTCC
TGCTGG-TTTGCTGTAATATTGGATGAGAGATGCGAATGCTCTG-------------------GCTGCAATATGTATACT
GCCTTTATTTCGTTGTGTGTATG---------CATACACAAATTGCTTTAACGACGATTTTGCACATGTATCAAAAGACA
TTGCCAGCGCAAATCCAGTGCGCTGCTTCCTTGGTTTGGTTAGTGAAATCGGTAGGATTTGAAAATGGATATTTTTCGCA
CCCCGCCGTTTCAACT--------------------TACTTAGGATG-TTTTTTTACGGATTTACTTTGTGTATTACTCG
AATGCACGGATACTTCAGTCGACCAGCGAATCCGTATCCGATACTGATACTCCTCCGATACGCCCCCGATACGTGTCCCT
GGAGTATCTGAGAATAAATGATTTAAAACAATTACGATACTCGAAGGATACTTTGTTAATACGTCTTGGATACTTTTCCA
GCCCAGGTAAGAGCCCACTCAGCCCATTTAAGAGGCAACCAACTACCCTGGTGCCGTGATGCCCTCTATCCTTTCCCTCA
CAACGTCTTTCCCCCTTCCCGTGCTCACACCAGGCGGCGCCTGTGTCGCCAGCGGCTGCTCACCCAGGTCCCTGGGACAG
CGGCGGCGGCTAGCCGTCAACAAGCTCCTCCTCCTCCTCATCAACGTCCCCTCTCACGCAGCAGCCATGTATTTACACTT
CTCTTCTCCATTTCTCCTGCCCAGCCAGGCTCATCTCCTCTTCTTTCTTCTCTGATCTCTGAGGATTTCTTATTTTCATC
TTCTCCAGGTTGCTTTGGGTAGCTACAACGTATCCGTATTGGCCCGATACTGATACCCGTATCCGTATCGGTGCATTCAA
GGTGTATTACTATCGTTGTAAGTTAGACTACATAAATTTTAAAACAAACTATAGAAAAAAATTATCAACATCTATAATAC
CAAATCAACACTATTAGATTCATCATTCAATACATTTTCACATTATATATATGTTTATTACTGTATCACACATAGAGAAA
GAGGTAATACAG-------GCATACATGATGGGTGAATGGATGGATGCAGCATATAGTTAACAAGAGGGAAGAAGTATCT
TCCATGGCGAACTTCAC----TTCATTTTTTGTGGAAATTATGAACTTCATTTGGCAGTCCTTCGCTGGAGGGGGTACCT
CATATTGAGGCTAGACTAGCAGTGGTGAATCGTCGGCTTCTTCATCGGCCGGTGAATGCGCAGGGTATGTGTTGGAGCTA
CTTGGTCCCCT----CCCATTTACTCCAGAAGGGATGGTGGGGTTTGAAGTGGACACTAAAAATAGCAGTTGCATCAAGA
AACCCCTCACTCTTTTGATGTGTGGACGACGCTGACGATCCGGGTTGACACACATGAGCCCGATCTCCAACACACTTTTG
AGTTCCCCGTCAAATTGGCCTCTCAACCCTTTGTCATCTGCACCGAGAATTGTATTGTTCGCTTGAC
>chr1B_448
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--------------------------------------------------------------------GCCGCGATTCCC
TGCTGTACTCTGTGGGTATTTGCAAGTTGTACCATATCTTATGATTGAACGAAACCAAATGTGGTGGATGGCACGTC---
--------------------------------------GCTCTTGTGTGGCAACAATATGGCATGGAAGTAGTAATAATG
CTATGCCTATGATGATCAATTGTTGGGGACA----TGGCTGGTTGGTGCCAGCTCGTTGAGCTATTA---TTTTTCCCTT
TTCAACATGTCCGTTGTTTTTATCAAAGCATAAGCCATTGCTATTTTTATCATAAATAAAACTGCTG-------------
------------------------AAATGGCAGAGTTCAACATTGGTGTCATCTGTCATGTGCAGCGACCGTCAGACTAG
GCGCTGAAAACTGAACTGCGATTTGCTTCGGTGAATAACAAGAGAGGGAAAGTTGTCATTGCTAATC-----------TT
TTTGACCTGTCAAAAGAAAAGAAAAGCGACCTTCGCTA-AGTTGCTTCATCATGACCAACAGCCCGGACAGCAATTAGGC
CATTTCCTTCCCAAA------TCCCCTCTCCCTTCAGCAAGTCAGCTCTCTCTGGTCTCTGCCCGCCATGGCGGCCAAGC
TGACCAAGGAGCAGTCGGACGAGTGCAAGGAGGTGTTCGACCTGTTCGACGGCGACGAGGACGGCCGCATCGCCGCCGGC
GAGCTGGTCACGGCGCTCCGCTCGCTGGGCCAGAACGTGGACGAGGACGAGGCGCGGGGCTTCCTCGAGGACGCGGGCGC
GGGCGGCGCCGGCGCCG------TCGACCTCCCCACGTTCCTGGCCGTCGCGGCGCGCAAGGCTAACGCCGGCGTGTCGG
CCAAGGGCCTGGCCCAGTGCCTGGACGCGTTCGACGACGACGGGAGCGGGGTCATCCCCGCGGAGCAGCTGCGGCAGGTG
ATGCTCACCCACGGCGACCGGCTCACGGAGGAGGAGGCCGACGAGCTGGTCCGCAAGGCCGACCCCCGCGGCGAGGGCCG
CGTCCAGTGCAAGGAGCTCGTCAAGGTGCTCATGAACAACAAGTGATCCACGAGCTTCGCTGATCTGATGCATTGATCGA
TCGGCCGATCTGGGGACTGGTGGGCTGTTG---TCCGGTGAGGAAATGGTGCCATGTTTCTTGATTTGGTGATGCACTCC
TACTGGTTTTGCTGTAATATTGGATTC--GATGCGAATGCTCTGCGTACGCGAAGTTCTTCTGGCTGCAATATGTATACT
GCCTTTATTGCGTTGTGTGTATG---------CATACACAAATTGCTTTAACGACGATTTTGCACATGTATC-AAAGACA
TTGCCGGCGCAAATCCAGTGCGCTGCTTCCTTGGTTTGGTTAATGAAATCGGTTGGATTTGAAAATGGATATTTTTCATA
CCCCGCCGTTTCAATTTACTTTGAAAATCAGCAGAGTACTTAGCATG-CTTTTTTACGGATTTACTTTGCATATTAGTAT
TGT--CT-------------------------------------------------------------------------
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------------------TAAGTTAAACTTCATAAATTTTAAAACAAATTATAG-AAAAAATTATCGACATCTATAATAC
CAAATCAGCACCATTAGATCCGTCATTGAATACAATTTCGCATCATATTAT--------------------ATGGAGAAA
GAGGTAATACTACATGCATGCATGCATGATGGGTGAATGGACGGATAAAACATACAATTAACAAGAGGGAGGAAGTATCT
TCCAAGGCGAACTTCAC----TTCATTTTTTGTGGAAATTACAAACATCATTTGGCAGGCCTTCGCTGGAGGGGGTACCT
TATATTGAGGCTAGACTAGAAGTGGTGAATCGCCGGCTTCTTCATCGGCCAGAGAATGCGCATGGTATGTGTT-GAGCTA
GTTGATCCCCCCCACCCCATTTGTTCCAGAAGGGATGGTGGGGTTTGGTGTGGACACCGAAGGTAGTAGTTGCATCAAGA
AATCTCTCACTCTTCCGATGTGTGGACGGCGCTGACGATCCGGGTTGACACACATGAGCCCGATCTCCAACACACTTTTG
AGTTCCCCGTCAAATTGGGCCCTTAGCCCTTTGTCAGCTGCACAGAGAGTTGTATTGTTCGCTTGAC
>SNPs
SSSSSSS---------SS-----------------------------------SSSS---------------S-S-----
-------------SSS----------------------------------------------------------------
------S------------S--S---S--S-----S---SSS-------------------SSS-SSSSSSSSSSSSSSS
SS-----------------S----------------SSSS-SS-S----------------------SSS-----S----
-----------S-------SS-S----------------------S----S----------------S--S---------
-----SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS------------
S----------S---SSS-----------------------------------------------------------SSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS------------------------------------------
---------------------------S---SSSS-------------------------------S---S---------
---------------------------------------------------------S-SS--SS-SSSSSSSSSSSSSS
SS-----S--------S----S----------------------------------------------------------
-----------------------------------------------------------------S----------S---
----------------S---------------------S-------------------S--------------------S
---------------------------------S------S--S------------------------------------
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--------------------------------------------------------------------------S-----
-----------------SSSSSS----------------------------S-----------------------S----
-------S--------------S--------------------------S------------------------------
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------------------------------------------------SS--------S------------S--------
-----------------S----S-S-----SSS-----------------------------------------------
--------------------------S------------------S----------S--------------------S--
--S---S---------S------SSSSSSSSS------------------------------------------------
----------------S---------------------------------------------------------------
---S-------------------------------------------S--------------------------------
----S---------------------------------------------------------------------------
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------------------------S-----------------------S-------------S-----------------
---------------S----------------------------------------S--------S--------S-----
-------------------------------------------------S-----------------S-S----------
-------S----S----SSSS--------S-S--S------------------------------S--------------
-----S-------------------------S--------------S-----------S--------S------------
--------------------------SS----------------------------------------------------
----S---------------------------------------------------------------------------
---S--------------------------------------S------------------------
>forward_492
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------------------------------------------------------------------------CGATTCCC
CGCTGTACTCTC--------------------------------------------------------------------
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>reverse_2988
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---------------------------GGAAGGGATGGTGGGGTTTG---------------------------------
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