>input_sequence_76217
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--------------ATCAA--TCAATCTCCTTCCAAGCTCTACTCGTCTCGCAAACGAAAGAGCAG-----ATCATATCA
GACCAGAGTGAGTTTGCATCTGCGAGCTGCGCCAATGGAGGGG---AGAACTGCTCTCTGTTTCCTCGTCGTGCTCGCGC
TTCTCGCAAGCCCTGCTCTCGCAGGTACGTGCG--TGCTCCCCTTCCATTTCACATCCCCTCTCTTTTAC---AAGAAAA
GATCTCCTTCTTTCCCTTTACATCTCTGTTCCACAGAAAAGATCTCTAATGACGATAGTGTTTGTATGTTTGTTGGCTAA
TTGCATCTGTATATATATGTATCTA--------------------------CATGCATGCAGAACGCAAGTGCTACAAGG
AGCGCTTCTACTCCATGATATGCATGAAGTGGCACTGCGCCATGGAGTGCGTCAACCAGAGCCCGGACCTGGTGCTCAAG
TCGGCCCACTGCACCACCAAGCACGTCATCATGCGCTACTGCAACTGCGAGATGTGTACCAAGGAGTAGACTGCTCTGTC
TACTCTGGTCGTCTA-GTTATTAGCTAGGGAGGCGTACCACCAATAAA--------------------------------
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>chr5D_1_TraesCS5D01G342500
TTTTTTAAATCAATTAACCTTTTTTCAAATTGATGAACTTTTTGCAAATTTTCTGGATATTTTTTAAAATATATGAACTT
CCTTTATGAATTTTTATAAACTTTTTTTCAAGTTCGATGAACTTTTATAAAATTTGGCGAACTATTTTTCAACTTTGATG
TACTTTTTCTCTAAAAAATTCACAAT--TTTTTGTCAAATTGATGAGCTTTTTTCAAATCAATCATTTGCTTTTCGAAAT
CCATGCACATTTCCGATTTCCCTAAATTTTCGTCTTTTGAGATTTTTTTTTGTTATT--TTTTCAAATGTGATCGAGCGA
ACCAGGGGGGAATAAAAAATGCGATGGAGCGCTCGCATCTAGAT---------------GGGCCCTAGGCTAGATGA---
----GCTATCTCATGGACACC-AGCAATTTATACGCTTCGCTTAAAAAG---G-CAATTTATACGCCCATTTTACTGAGA
AATCACCGTGTTTTCTCGAAG-------TCCAAAAGTCCTGGATAGATCGGGTGCAGAGCGGGATCCCAAGAATTACACG
TG----CATCCATGGGCATGAACACCTCCTCAACGCGAGCCCTGTCCCGTGTTGCTGTA----GTATGGCCAATCAGTTC
GGATTAGATGGTTTAGCTACG-----TGATGCTGCTACTAGGCCTTTTAATTAGTGCAACTGTATCCTTCTCAAAAAAAT
AAA------------------------------------------------------TAGTGCAACTATATACATGCGGC
CCAAATGTAGAGCTACACTAGGACGGTGCTTGCCTCTACTGCGTGCGTATCTGGAGTGAGGCTTCCCTAAAATAAAATAA
AAAATCTGGAGTGAGGCGCGAGCAAGCGGAACAGCCGAGACGGTATATTCTCC-TTCTCCCGATCGCCTCGCACGACAGG
C-TAACAGCC----TTGATTCCTTCAAGCGCTGCATGCGGTCGCCTCCACGGGAAGCGGGCGGGGTCGTTAGGAGATTCT
GTGGATCTCACCG-------------------------------------------------------------------
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------------------------------------ATCCATCCTCCACCTCTCTCCCTCCTATATATAGGTGCGAGGCC
CGGCAGGGTGAATCATCAA--TCAATCTCCTTCCAAGCTCTACTCGTCTCGCAAACGAAAGAGCAG-----ATCATATCA
GACCAGAGTGAGTTTGCATCTGCGAGCTGCGCCAATGGAGGGG---AGAACTGCTCTCTGTTTCCTCGTCGTGCTCGCGC
TTCTCGCAAGCCCTGCTCTCGCAGGTACGTGCG--TGCTCCCCTTCCATTTCACATCCCCTCTCTTTTAC---AAGAAAA
GATCTCCTTCTTTCCCTTTACATCTCTGTTCCACAGAAAAGATCTCTAATGACGATAGTGTTTGTATGTTTGTTGGCTAA
TTGCATCTGTATATATATGTATCTA--------------------------CATGCATGCAGAACGCAAGTGCTACAAGG
AGCGCTTCTACTCCATGATATGCATGAAGTGGCACTGCGCCATGGAGTGCGTCAACCAGAGCCCGGACCTGGTGCTCAAG
TCGGCCCACTGCACCACCAAGCACGTCATCATGCGCTACTGCAACTGCGAGATGTGTACCAAGGAGTAGACTGCTCTGTC
TACTCTGGTCGTCTA-GTTATTAGCTAGGGAGGCGTACCACCAATAAACTAAATCCATATGGAGCTAGAGAATAATAGTT
ATTCTAGGAGTGTATATGCATGTCGTCG---ATGACATGCATGTGCATGCATGTTACTGGCTAGCCAGTACGCTTCAGCT
TGAGCAGATTGTGGAACTGATCGATCAATAAAGAT----TCTGGATGTGAGTTCCGTTTTGTTTCGTCGTGATTTGATTG
------T------ATGTTGACCAGATTCTTCATCGACCTTCACATGATTTTAACTAGTATAAGTATGACAACATACTTAA
ATAATCTATTCGCAAGAAAAAACATACTTAACTAATCTGCAATTAAGATGCTTAAACACCTTCCTGCAATATGCATGATA
AACTTTATCCATGATTATCGAAAAATAAATTTCATCTGCCATTGCAAATT-CAAATCAGAACTTGGTTGCTTCTTTGTCC
TCGCTCGAATGGGTGTTTCTCAAGCACTTGGTGGGTTTGAAATCGGTTAGCTCGTGTAGCCTGGTTTGTACGCGATTGAT
AGCTTTTTC-TCTCGACTTGACGATGAGCATTGTTGACGTTGAAGCGGAGCACGCAGAGCTCGGCCTTCCGTCTTGCACC
ATGGCCGGAGTC-GGCGCCGAGCGTGAGCAGGAGGATGATGCAGTGCGCTGCCAGATTGTACCGCGAGCGTTCCTTGGTG
CC-AGGCTGTCCGCGCGCCCGGCCATGAGAGGTAGAA--GCGGAAGAACTGCGGTCGCAGGCGATGCGAT----------
--------CGCCGCTGCTGGCTCTCCTGGATCGGTTACGTC--TGAGTTTGTTGGGCCACGAGGCGCTAGCGTAGGATAG
CACC------------GAGTGGTGTGGATCATGGCGTAAAGCTCGGCAGGTTTAGCTGATCTTGTTTGCATGTAATCACA
AGATATAATCGAGAAAAGGATGTAATGCGTCGCGAAGTACTTCCGCCCTTCTTTTTTTTTTCGGGGTATACTTCTGCCTC
ATGTATCCACCGTGCATGCTGTGTGACGGATCGGCCCGATTTGGAATCGACCATTCCATTTTAGG
>chr5B_102
TTTTTTCTCAAA--------------------------------------------------------------------
--------------------------------TTAGATGAACTATTTTCAAATTTGGCAAACTATTTTTCAAATTTGATA
T----TTTT----TAAAATCCACATTTTTTTCT---AAATTGATGAACTTTTTTCAAAACCATGACTTTTCTTTCAAAAT
CTGTGCACATTTGTGAATTCACTAAATTTCCGTCTTTTGCGAATGG------TTTTTTCTTTTCAAATGTGATCGAGCGA
ACCAGGGGGAAATAAAAA-TGCGATGGAGCGCTCACATCTAGAT---------------GAGCCCGCGGTCCACTCCAAT
CTCTGCTGTCTCATGGACACCAAGCAATTTGTACGCTTCACTAGAAAAAAAAG-CAATCTATGTGCTGATTTTACCGAGA
AAGCACCGTGTTTCCTCAAAGTGCCAGCTCCAAAAATCCTGGATAGATCGGGTGCAGAGCGGGGTCCCAAGAATTACACG
TGGATGCATCCATCGGCATGAACACCTCCTCAACGCGAGCCCTGTCCCATGGGGCTGTAGTATGTTTGGTCAATCAGTTC
GGATTAGTCGCTTTAGCTACAGATGATGCTGCTGCTACCAGGCCTTT---------------------------------
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----------------------------------------------------------------------CATTAGTGC-
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>chr5A_123
TT------------------------------------------------------------------------------
--------------------------------------------TTTTCAAATTTGGCAAACTATTTTTCAAAATTGATA
TACTTTTTT----AAAAATCCACAATTGTTTTTGTCAAATTGATGAACTTTTTTCAAATCCATGTCTTTTCTTTCAAAAT
CTGTGCACATTTGCGAATTCATTAATGTTT-GTCTTTTGCAAATGT------TTTTT--TTATCAAATGTGATCGAGCGA
ACCAGGGGGAAATAAAAA-TGCGATGGAGCGCTCTCATCTAGATGGCCCTTAGCTAGATGAGCCCGCTGTCCACTCATGG
-----------------CACC-AGCATTTTGTACGCTTCACTAGAACAAAAAGGCAATTTATATGCTGATTTTACTGAGA
AAGCACCATGTTTTCTCAAAGTGCCAGCTCCAAAAATCCTGGATAGATCGGGTGCAGAGCGGGATCCCAAGAATTACACG
TG----CATCAATCTGCATGAACACCTCCTCAACGCGAGCCCTGTCCA-TGTTGGTGTA----GTATGGTCGGA------
----TAGACGCTTTAGCTACG-----TGATGCTGCTACTAGGCGTTTTAATTAGTTTTATTTTTTGAGGATTAGGCATTT
TAATTAGTGCAACCATACACATGCAGCCCAAATGACGAGGCCCAATAGCCTATTCATTAGTGCAACCACATACATGCGGC
CCAAATGTAT----------------------------------------------------------------------
---ATCTGGAGTGAGGCGCGGACAAGCGGAACAGCCGAGACGGTATATTCTCCTTTTTCCCGATCGCCTCGCACGACAGG
CGTAACAACGGTCTTTGATTCCTTCAAGCGCTGGATGCGGTCGCCTCCACGGGAAGCGGGCGGCGTCGTTAGGAGATTCC
GTGGATCTGAGCAATCCNNNNNNNNNNGCCCTGTCCATGTTGGTGTAGTATGGTCGGATAGACGCTTTAGCTACGTGATG
CTGCTACTAGGCGTTTTAATTAGTTTTATTTTTTGAGGATTAGGCATTTTAATTAGTGCAACCATACACATGCAGCCCAA
ATGACGAGGCCCAATAGCCTATTCATTAGTGCAACCACATACATGCGGCCCAAATGTAGAGCTACACTACGACGGTGTTT
GCACTAATGATGAATAGTGTAGCTCTACATTTGTGCGGCCCAAATGTATATCTGGAGTGAGGCGCGGACAAGCGGAACAG
CCGAGACGGTATATTCTCCTTTTTCCCGATCGCCTCGCACGACAGGCGTAACAACGGTCTTTGATTCCTTCAAGCGCTGG
ATGCGGTCGCCTCCACGGGAAGCGGGCGGCGTCGTTAGGAGATTCCGTGGATCTGAGCAATCCTNNNNNNNNNNGCCCTG
TCCATGTTGGTGTAGTATGGTCGGATAGACGCTTTAGCTACGTGATGCTGCTACTAGGCGTTTTAATTAGTTTTATTTTT
TGAGGATTAGGCATTTTAATTAGTGCAACCATACACATGCAGCCCAAATGACGAGGCCCAATAGCCTATTCATTAGTGCA
ACCACATACATGCGGCCCAAATGTATATCTGGAGTGAGGCGCGGACAAGCGGAACAGCCGAGACGGTATATTCTCCTTTT
TCCCGATCGCCTCGCACGACAGGCGTAACAACGGTCTTTGATTCCTTCAAGCGCTGGATGCGGTCGCCTCCACGGGAAGC
GGGCGGCGTCGTTAGGAGATTCCGTGGATCTGAGCAATCCTTCCTCCACCTCTCTCCCTCCTATATATACCTGTGCCGCC
CGGCAGAGTGAACCATCAATCTCAATCTCCTTCCAAGCTCTACTCGCCTCGCAAACGAAAGAGCAG-----ATCACATCA
GATCAGAGTGAGTTTGCATCTGCGCGCTGCGCCAATGGAGGGGAGGAGAACCGCTCTCTGTTTCCTCGTCGTGCTCGCGC
TTCTCGCAAGCCCTACTCTCGCAGGTACGTG------------TTCCATTTCACATCTCCCATCTCTTTTACAAACAC--
GATCTCCTTCTTCCCCTTTACATCTCTGTTCCACAGAGAAGATCTCTACTGACGATGATGTTTGTATGTTTGCTGGCTAA
CTGCATCTCTATATATATGTATCTA--------------------------CATGCATGCAGAACGCAAGTGCTACAAGG
AGCGCTTCTACTCCATGATATGCATGAAGTGGCACTGCGCCATGGAGTGCGTCAACCAGAGCCCGGACCTGGTGCTCAAG
TCGGCCCACTGCACCACCAAGCACGTCATCATGCGCTACTGCAACTGCGAGATGTGTACCAAGGAGTAGACTG-------
----------GTCTT-GTTATTAGCTAGGGAGGCGTACCACCAATAAA-----TCCACATGTAGCTAGACAATAATAGTT
ATTCTAGGAGTATATATGCATGTCGTCGTCGATGACATGCAT-------CATGTTACTAGCTAGGTAGTACGCTTCAGTT
TCAGCAGGCGATTGTCGA-ATTGATCAATAAAGAT----TCTGGACGTGAGT-CCGTTTTGTTTGGTCGTGATCTGATTG
------TGTATGCATGTTGGCCAGATTCTTCATCGACCTTCGCATGATTTTAACTAGTATAAGTATAACAACATACTTAA
ATAATT-------------------------------TGCAATTAAGATGCTTAAACACCTTCCTGCAATATGCATGATA
AACTTTATCCATGCCGATCGAAAAATAAATTCCATCTGTCATTTCAAATTTCAAATCAGGACTTGGTGGCTTCTTTGCCC
TCGCTCGAATGG--GTTTCTGAGGTACATCGTGGGTTTGAAATCGGTTAGCTCGTGCCTCCTGGTTTGTACGCGATCCGT
AGCTTTTTTTTCTCGAGTGGACGATGAAGATTGTTGACCTTGGAGCGGAGAACGCAGAGCTGGGTCTTCCATCTTGGACC
ACGGCCGGAGTAGGGCACCGAGCGTGAGCAGGAGGAGGATGCGGTGCGCCG---------ACCGCGGGCGTTCCTTGCTG
CCTAGGCTGGCCGCGC-CCGGGCACTGAGAGGTCGAAGCGCGGAAGAACTCGGGTGGCAGGCTATGCGATGGGCGACGGT
GAAGCGGTCGCCGAGGGGGCTCCTCAAGGAGCGGTTACGTCTGTGAGTTTGTT-AGCCACGACGGGCTAGCGTGGCGTGG
GATAGCAGTATAGCATGAGTGGTTTGGTTCATGGCGTAAAGCTCGGCAGGTT---CTGATCTTGTTTGCATGTAATC---
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>chr5B_823
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-----------------------------------------------TTCTCC-TTCTCCCGATCGCCTCGCGCGACAGG
CGTAACAGCC----TTGATTCCTTCAAGCGCTGGATGCGGTCGCCTCCACGAGAAGCGGGCTGGGTCGTTAGGAGATTCC
GTGGATCTCACCG-------------------------------------------------------------------
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------------------------------------ATCCATTCTCCACCTCTCTCCCTCCTATATATACGTGTTCCGCC
CGGCAGAGTGAATCATCAATCTCC--CTCCTTCCAAGCTCTACTCGGCTCACAAACGAAAGAGCAGAGCAGATCAGATCA
GATCAGCGTGAGTCTGCATCCGCGTGCTACGCCAATGGA---GAGGAGAACCGCTCTCTGTTTCCTCGTCGTGCTCGCCC
TTCTCGCAAGCCCTGCTCTCGCAGGTACGCGCTTTTGCTCCCCTTCCATTTCACATCTCCCATCTCTTTTCCAAAAAAAA
GATCTCATTCTTCCCCTTTACATCTCTGTTCCACAGAAAAGATCTCTGATGACAATGATGTTTGTATGTTTGTTGGCTAA
CTGCATCTGTATGTATATATAATTATTTAACTACGTGTTTATAATTCTATGCATGAATGCAGAACGCAAGTGCTACAAGG
AGCGCTTCTACTCCATGATATGCATGAAGTGGCACTGCGCCATGGAGTGCGTCAACCAGAGCCCCGACCTGGTGCTCAAG
TCGGCCCACTGCACCACCAAGCACGTCATCATGCGCTACTGCAACTGCGAGATGTGTACCAAGGAGTAGTCTG-------
----------GTCTTTGTTATTAGCTAGGGAGGCGTACCACCAATAAA-----TCCATATGTAGCTACAGAATAATAGTT
ATTCTAGGAGTATATATGCATGTCGTCG---GTGACATGCAT-------CATGTTACTAGCTAGGTAGTACGCTTCAGTT
TCAGCA---GATTGTCGA-ATTGATCAATAAAGATAGTGTCTGGACGTGAAT-CCGTTTTGTTTCATCGTGATCTGATTG
TATATAT------ATGTTGGCCAGATTCTTCATCGACCTTCGCATGATTTTCACTAGTATAAGTATGGCAAGATACTTAA
ATAATT-------------------------------TGCAATTAAGATGCTTAAACACCTTCCTGCAATATGCATGATA
AACTTTATCCATGTTGATCGAAAAATAAATTTCATCTGTCATTGTAAATTTTAAATCAGAACTTGGTGGCTTCTTTGTCC
TCGCTCGAATGG--GTTTCTGAGGCACTTCGTGGGTTTGAAATCGGTTAGCTCGTGTGGCCTGGTTTGTACGCGATTGAT
AGCTTTT-TTTCTCGACTTGACGATGAGCATTGTTGAGGTTGGAGCGGAGCACGCAGAGCTCGGCCTTCCGTCTTGCACC
ACGGCCGGAGTC-GGTGCCGAGCGTGAGCAGGAGGATGATGCAGTGCGCTGCCAGATTGTACCGCGAGCGTTCCTTGGTG
CCTAGGCTGGCCGCGCGCCCGGCCAAGAGAGGTTGAA--GCGGAAGAACTCCGGTGGCAGGCGATGCGAT----------
--------CGTCGCTGCTGGCCCTCGAGGATCGGTTACATCTGTGAGTTTGTTGAGCCACAAGGCGCTAGCGTAGGATAG
CACC------------GAGTGGTGTGGATTATGGCGTAAAGCTCGGCAGGTTTAGCTGATCTTGTTTGCATGTAATCACA
AGATATAAACGAGAAAAAGATGTAATGCGTCGCGAAATACTTCTGCCTCA----TTTTTTTAGGGGTATACTTC------
-----------------------------------------------------------------
>SNPs
------SSSSS-SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS--S--------S--S-S---------S-------------S------S
--------SSSSS------S--------------------------S-------------S--S-S--SSS----S----
-SS---------S---S---S------------------S--S-S-SSSSSS--S-------------------------
---------S--------S---------------S-------------------------S----SS--SSSSS-S----
-------S----------------------S--------S--SS----S--------------S--SS------------
--S--------------S-----------------S--------------------------------------------
-------------S----------------------------------S--------------------S----------
--------S-S--------------------------------------------SSS-S-S-S-SSSSS-S-SSS-SS-
S-----------------------------------------------------------------S-S-----------
---------SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSS-----------------SS----------------------------------------------------------
---------------------------------S---------------------------------------------S
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---------------------------------------------------------------------S---S-SS---
------S---------------------------------------S----------------------------S----
--S---------------------S--------------------------S----------------------------
--------------------------------S------------------------S--SS---S--SS-----S----
------------S-------------------------------------------SS----------------------
S-------------------------------------------------------------------------------
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-------------------------------------------------------------------------SSSSSSS
SSSSSSSSSS----S---------------------------------SSSSS--------S------------------
-----------S------------------------------SSSSSSS---------S-----SS------------S-
-S-----SSSS-S-SSSSS--S-----------------------S------S--------------------S------
-------------------S---------------------S--------------------------------------
-----SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS-------------------------------------------
-------------S-S----------------------S----------------------------S------------
------------SS------S-S------S---------------------------S----------------------
--------S---------------------------------S-------------------------------------
-S------------------------------------------------------------------------------
---------S-----------------------S----------------S----S------------------------
---------------------S---SS---------------------------S-------------------------
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--------S--------S------------------S------S---SSSSSSS-------S------------SSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
>forward_811
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-----------------------------------------------------------------------ACATGCGGC
CCAAATGTAGA---------------------------------------------------------------------
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>reverse_3458
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-----------------GGATGTAATGCGTCGCGAAG-------------------------------------------
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