>input_sequence_80059
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-------------------------------------------------------------------------------A
TGAGTGATCGAAGGTACGGGTACTCGTACCCACACAACCAAGGTAACTACTACTTGT-----------TCCACGCATGAT
G------------------------GATTGTGTGTCTTGCATTCCATTTCCTTTC--TCCCTTCTTGTTTGCTCACGCTC
ACCGCCTTGCATGAAACTGAAACTGGAACGCGCGCGCACATGCAGGGTATTACAACGGACCACCGGTGATGGCGCCGCCG
CAGTACGCCCCGCCGCCGAGACGGCAGACGGGCTTCCTCGAAGGATGGTACGTAATAGAAAGCTAAGAACCTGACGGTTT
TTCTT----TCCTCTGCGTAAACTATGTGGGCAGTGCTAATCTGAGGTGCTCTGTGTTCGTGCTTGCATGCCCTGCAAAA
CTACGTACGAACAGCCTGGCTGCTCTGTGCTGCTGCTGCCTCGTCGACGAGTGCTGCTGCGACCCGTCCATCATATTCGT
GAGCTGA-------------------------------------------------------------------------
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>chr3D_1_TraesCS3D01G312400
ACAAAAGACCCTTACAAACCGGGGTAAAAGCCCCTTTTCCTACTAGTGTTCTCACAAAGTTTCGGAATTTTAAAAAATGC
TTTGATATGTTTTTCTCACGTGGGTGCATCAAGCTGGTGTGTAGAAAAATCACACTCTTATCTGAACCCTTATGTTGGCT
TAGCTCTCACGGTCTCCGAATCACAGTTCTGCACCACGCGTCACTCCAGTGTGCCTGCTGGAAGTTCAGCATAGCATAGA
CACCGAAAACTCTAGAGAAGGGCCATCTGGTTTGCTACGAATCGTGTGAAGTGAAAGAAACAAAGAATTCAGCATCTGCA
CACTGTTCGCTCATT---ATCGGTTCGTGCACGTTCCCGAGAGCCAATGAACCTGTATTCTCCTCGTCTCGCCATCTCGA
GTTGGCGACGTCGGGTTACTTGCCTCTTCCCAACGACCAAGAAGAAGAAGATC-----------GTAGCTCGCATTGCAT
GCAGAGGTTATAGATTCCC----AGCGTCTCTGGTTTCTCCGTTTCTGATGCTGGTTACAGAGTTGTGCCGTTCACATTA
CAAGGTGGCGCATTAGCATCGATCTCTAGCGCTTGTTAGATTACTACTGTAATCAATTGTAAACAGCGACAGCAAGCAGA
GATA-GAGTTCGATCGTATGAGTATGATGATGCCCCATTTGCTTGAAGTTAAAGGCAGGAATAATCCACGGAAGGTCAAA
AAGGAAGGGCGCAATTAATTAAAAGGAAGCAAAGAGATAATCA---GATAACGATCG---AGTAGCTTTATTCGTTTCCC
CTCGC----TGCCGCCTAGGATCGATGAGGTGCCGACAGCGGCGCACAGAATGTTTTAGAAGCACCACTAAAAGTGCAAT
CCACGGCAAAAATATACGAG----------TTGATCTTCGGTTTGCAGCCGCTATTTATACTCTCTCCAGGCCCAACACC
GGCCGGTCCACTTCTCCCTCGTAAGGCAGCAGCCATCTGCAACTAGGGTTCATAACTTCATATATAGCCAGTGACCAACA
TGAGTGATCGAAGGTACGGGTACTCGTACCCACACAACCAAGGTAACTACTACTTGT-----------TCCACGCATGAT
G------------------------GATTGTGTGTCTTGCATTCCATTTCCTTTC--TCCCTTCTTGTTTGCTCACGCTC
ACCGCCTTGCATGAAACTGAAACTGGAACGCGCGCGCACATGCAGGGTATTACAACGGACCACCGGTGATGGCGCCGCCG
CAGTACGCCCCGCCGCCGAGACGGCAGACGGGCTTCCTCGAAGGATGGTACGTAATAGAAAGCTAAGAACCTGACGGTTT
TTCTT----TCCTCTGCGTAAACTATGTGGGCAGTGCTAATCTGAGGTGCTCTGTGTTCGTGCTTGCATGCCCTGCAAAA
CTACGTACGAACAGCCTGGCTGCTCTGTGCTGCTGCTGCCTCGTCGACGAGTGCTGCTGCGACCCGTCCATCATATTCGT
GAGCTGATCGAAACACGTACGCTATCCAGACGACGGCCGACCGACCGACCGACCGACGAACCATCCGAGCCGAGCTACGT
ACCTAACGTACTGGTAGTAGTACATGTGCGATTTATATATGCGTGTCGTGTGTATGTGTGCTTCCCTTGAGCTGTTGCTT
TCAGCTATAGCTATA-CATATGCTCCTAGAGGCCTAGACCAAAGTAGAACTGCAGAAAGAATAGCCAGCCCGTCCTGCCG
TTCGGTTCAGCTCTCCAGCGGCACGACGGGTGGGTGGTGTATGTATGCAT------------------------------
----GTATCTGATGTGAGTCTACGAATAATATGATGAGGAAAAAGAGAAGTTCAGCACCTTCTATGATGTGAGCCTATGA
CATCCTGAATTTTACAAAAATAGCATTATCAATATCAGGTTCACCGCTCACAGGAGATGCACCGGTAAGGTAGAAAGTCA
AAACTGAGCGCCATGACGGACGCAAACACACGCCCCTTCCAGAGAATTTAATCGCGCCGAGCCGAGTCAAACAGAGTGAA
GCGGAACCTGCAGGAAGCGAAGAGGCACAT-GGTTCCAACAAGAACCTGAAGAGACCTTTGTCGGAAAAAAAAAGAACCT
GAAGAGACAGGCTAACGTTAAGGCTAGCACTAGCAGTGTGCGCAATCTGTGGCAGGACTCGCCTCTCCA---------GT
TGCGCGGGGAGTGGCGGCCCGGAGGCGGAATCGGTG-----GCGATCCACGGAGAATATGTGCAGCGGCGGCTGGGCGTG
GACAAAAGGCATCGTGCTCGTCTTCTGGGCGCGGGGTCTGAGGCC----------------CCTCCAGGCTCCAGCAACC
GCAAGAGCTAGCTGCGCCTATGAATATGACCGTTTTTATTTCGAAAATGATTACGATTCATAGTAAGTAGAAAGCACCTC
AAACGCAATTTCACCGACATTTTGAGACCACAACCACCACCGTAGCCGGAGCGCGATGTTGTCTTCGCTCCCCTACCGTA
GCCAACTTGATGGTGTCAATGACAGTTTGGAAG
>chr3B_138
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---------------------------------------------------------TTATCTGAACCCTTATGTTGGGT
TAGTTCTCGCGGTCTCCGAATCAGAGTTTTGCAGCACGCGTCACTCCAGTGTGTGT-CTAGAAGGGC-----AGCAAAGC
CACAGAAAACCCTAGAGAAGGGCAATCTGG-TTGCTACGAATCGTGTGAG-----AGAAACAAAGAATCCAGCATCTGCA
CGATGATCGCTTATTATCATCGGTTCGTGCACGTTCCCGAGAGCCAATG----------------GTCTCGCCATCTCGA
GTTGGCGACGTCGCTTTACTTGCCTCTTCCCAATGAAGAAGAAGAAGAATAGAAGATCGTAGGAGTAGCTCGCATTGCAT
GCAGAGGTT-TAGATTCCCAGCTAGCGTCTCTGGTTTCTCAGTTTCTGATGCTGGTTATCGAGTTGTGCCGTTCACATTA
----------------------------GCACTTGTTAGATTACTGCTGT----AATTGTAAACAGCGACAGCAAGCAGG
GATAAGAGTTCGATCGT---------ATGATGCCCCATTTGCTTGAAGTTAAAGGCAGGAATAATCCACGGAAGGTCAAA
AAGGAAGGGCGG----AAATTAAAGGAAGCAAAGAGATAATCA---GATAACAATCAAGTAGTAGCTTTATTCGTTTCCC
CTCGCGCGCTGCCGCCTAGGATCGATGAGCTGCCGACAGCGGCGCGCCGAATGTTTTAGAAGCACCACTAAAAGTGCAAT
CCACGGCAAAAATATACACTAGCAGACCGCTTGATCTTCGGTTTGCAGCCGCTATTTATACTCTCTCCAGGCCCAACACC
GGCCGGTCCACTTCTCCCTCATAAG---GCAGCCATCTGCAACTAGGGTTCATAGTAGTTC--ATAGTCAGTGACCAACA
TGAGTGACCGAAGGTACGGGTACTCGTACCCACACAACCAAGGTAGCTCCCACGTTTATTACTACAGCTCCACGCATGAT
AATAGATAGACGAGTAGGAGTATCTGTTTGTGTTTTTTGCATTCCGGTTACTCTTTTTCCCTTCTTGTTTGCTCACGCTC
ACTGCCTTGCATGAAACG------GGAACGCGCGCGCGCACGCAGGGTATTACAACGGACCGCCGGTGATGGCGCCGCCG
CAGTACGCCCCGCCGCCGAG------------------------------------------------------------
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>chr3A_181
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--------------------TCACGGTTGTGCACCACGCGTCACTCCCGTGTGCCTGCTGGAAGGGC-----GGCATAGA
CACAGAAAACTCTAGAGAAGGGCGATCTGG-TTGCTACGAATCGTGCA-----AAAGAAACAAAGAACCCAGCATCTACC
CTTGAATCGTCGACCGATTTCTGATGATTTAACCGGACCA-------------TGCATTCTCCTCGTCTCGCCGTCTCGA
GTTGGCAACGTCGCTTTACCTGCCTCTTACCAACG---AAGAAGAAGAAGATC-----------GTAGCTCGCGTTGCAT
GCAGAGGTT-TAGATTCCCAGCGTCTTTG------------GTGTCTGATGCTGGTTACCGAGTTGTGCCGTTCACATTA
CAAGGTGGCGCATTAGCATCGATC-CTAGCGCTTGTTAGATAACTACTGT----AATTGTAAATAGCGACAGCAAGCAGA
GATA-GAGTTCAATCGTATGAATATGATGC--CCCCATTTGCTTGAAGTTAAAGGCAGGAATAATCCACGGAAGGTCAAA
AAGGAAGGGCGG----AATTAAAAGGAAGCAAAGAGATAATAATCGGATAACGATCG---AGTAGCTTTATTCGTTTCCC
CTCGC----TGCCGCCTAGGATCGATGAGCTGCCGACAGCGGCGCGCCGAATGTTTCAGAAGCGCCACTAAAAGTGCAAT
CCACGGCAAAAATATAC--TAGCAGGCCACTTGATCTTCGGTTTGCAGCCGCTATTTATACTCCCTCTAGGTCCAGCACC
GGCCGGTCCACTTCTGCTAGC--AG---GCAGCCATCTGCAGCTAGGGTTCA---TAGTTC--ATAGTCAGTGACCAACA
TGAGTGACCGAAGGTACGGGTACTCGTACCCACACAACCAAGGTAACTCCCACGC-----------------------AT
GATAGATAGACGAA------TATATGTTTGTGTTTCTTGCATTCCATTTCCCTTTTC-CCCTTCTTGTTTGCTCACGCTC
ACTGCCTTGCATGAAACTGAAACTGGAACGCGCGCGCACATGCAGGGTATTACAACGGACCGCCGGTGATGGCGCCGCCG
CAGTACGCCCCGCCGCCGAGACGGCAGACGGGATTCCTCGAAGGATGGTA----ATAAAAAGCTACGAACCTGACGGTTT
TTCTTAATTTCCTCTGCGTAAACTATGTGGGCAGTGCTAATCTGAGGTGCTCT------GTGCTTGCATGCCCGC--AAA
CTACGTACGAATAGCCTGGCTGCTCTGTGCTGCTGCTGCCTCGTCGACGAGTGCTGCTGCGACCCGTCCATCATATTCGT
GAGCTGATCGAAACACGTACGCGGTCCAGACGACGGCCGACCGATCGACCGACCGACGAACCATCCGAGCCGAGCTACGT
ACCTAACGTACTGGTAGTAGTACATGTGCGATTTATATATGCGTGTCGTGTGTATGTGTGCTTCCCTTGAGCTGTTGCTT
TCAGCTATAGCAATAGCATATGCCCCTAGAGGCCTAGAACAGAGTAGAACTGCAGAAAGAATAGCCAGCCCGTCCTGCCG
TTCGGTTCAGCTCTCCAGCGGCACGACGGGTGGGTGGTGTGTGTTGCATGTATGTATGTATCTGATGTGATCCCCTAAAA
AAAAGTATCTGATGTGAGTCTACGAATAAGATGA---GGAAAAAGAAAAGTTCGGCACCTTCTATGATGTGAGCCTATGA
CATCCTGAATTTTACAAAAATAACATTATCAATATCAG-------GCTCACAGGAGATGCACCGGTAAGGTAGAAAGTCA
AAACTGAGTGCCATGACGAACGCAAACACACGCCCCCTCCAGAGAATTGAATCGCACCGAACAGAGTCAAACAGAGTGAA
GCGGAACATACAGGAAGCGAAGAGGCACATTGGTTCGAACAAGAACCTGAAGAGACAGGC--------------------
------------------TAAGGCTAGCACTGGTAGTGTGCGCAATCTGTGGCAGGAGCCGATGGTTTCGTCTCTCCGGT
TGCGCGGGGAGTGGCGGCCCGGAGGCGGAATCGGTGCAGCGGCGATCCACGAAGAATATGTGCAGCGGCGGCTGGGGGTG
GACAAAGGGCATCCTGCCCGTCTTCTCGCGCGTTGCGTTCCGCGGGCGCGGCGTGGAGACTCCTCCAGGCTCCAGCAACC
GCAAGAGCTA----------------------------------------------------------------------
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>SNPs
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS---------------------S-
---S----S-------------------S-----------------------------------SS-SSSSS--------
---S-------------------S------S------------------SSSS---------------S-----------
-SS--S-----S-------------------------------------SSSS--S------------------------
-------------SS---------------------SS------------------------------------------
---------S------------------------------S------------------S--------------------
------------------------S-------------------------SSSS--------------------------
---------------------S----------------------------------------------------------
-----------SSSSS----------------------------------------------------------------
-----------------------------S---------------S-S--------------------------------
-----------------SSS------------------------------------------------------------
--------------------S----SSS--------------------------SSSSSSSSS----S------------
-------S----------------------------------------S-S--S-S------------------------
--------------------------S------S--------------------S-------------------------
--S----------------------------------------------------------S------------------
--------------------------------S-----------------SSSS---S-------S--------------
-----------------------------------------------------SSSSSS--------------SSSS---
-----------S--------------------------------------------------------------------
----------------------SS--------------------S-----------------------------------
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-----------S-----------S--------------S--S--------------------------------------
----------------------------------------S---SSSSSS------------------------------
-----------------------------S----SSS---------S------S--------------------------
----------------------S---------------SSSSSSS-----------------------------------
--------S---------S-----------------S-----------S------S----S-S-----------------
-------S-S--------------------------S-------------------SSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSS-------------S-S-----------------------SS--SSSS-SSS-----------
---------------------------------------------------S------------------------S---
------S------S---S--------S-SSSSSS-SSS-SS-SSS-----------------------------------
----------SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
>forward_585
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-----TGGCGCATTAGCATCGATCT-------------------------------------------------------
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>reverse_2502
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---------------------TTGAGACCACAACCACCACC---------------------------------------
---------------------------------
