>input_sequence_83791
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-----------------------------------------------------------------ATG---GCCATGGCC
GGGAGGAAGGTGACGACGAGCAGCGCCAGCGTCGCCGCAGCGCTGGTGGCGCTGCTGGTCGTGGCGGCGGCGTCGGGCGC
GGCCGGGATTCATGTGTGCAACGTGGACACGGGGAGCATGCTGAACAACTGCAGGTCCTACTGCTCGGTGGGCAGCAACG
AGGCCAGCCCCAGCGGCGCGTGCTGCGGCGCGGTGCGCGGCGCCAACTTCAAGTGCCTCTGCAAGTACAAGGGCTTCCTG
CCCAAGGACATCGACGCCAACCGCGCCATGCAGATCCCCGCCAAGTGCGGCTACGGGCCGGCCTCCTGCTAG--------
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>chr3A_1_TraesCS3A01G419800
ACTCCAAACACCTTTCTCCTCATTAACTAGCTGCCACATAAGTAATCTTGTCTTGGGATGTGTTATGTTCCTAGCTAAGT
TACTCCCACTATGACTAGCCTCACATACAGTCGCACGCCCAACACCGGCTGCAACGCATAGGAGATATTATTTGTGTAAT
TCTTGAATTAGTAAACTAATAGCTAGTTTATAAACTGTTATTTGATTTCATTTAAAAATACAAATTTGAGCTTATGTGGA
TAATGAGATTGGGAGATAATTGCTATCTTGTTACACAGACGAAACTTTTGATTCAAATTTGATATTTTTCAAACTTGCAC
CTGTCCTTTTTCCTAAAGAAACACCGATGGTTCTTCTCTTTTGCTCTCTTTCCTCGTTTGTTCCTCGGTTTGCTCCGGTA
CTGGTCAAACGTCTATGGCATTACCTCACCTTCATGAATCTCTCCCATCGTCACTTTGGTTCTTCCCGGGAC---AAAAG
ACCTCCACCACGTCAGTCAACCTAA----CTTTTGTAGAAATATTGTTCAACACGGCTCTTGCTTGGAGACATGACGAGA
ACCTCAAAATAGTATTCCTCCAAAAGTTGGTTGATTAGGTA-----GCGGTCTCAGTCTTCTTCAAGTGTCACTAGCTAG
TGGAGCACTTGTCCAACCAGGAGTGGCTGCTGTCTGCCGCCTCTTTCTCCTCTACTAATTCTTACACCGCTTTCACAGTC
AATGGTCTCATGCCAGTCCCCTGTTCAGACAATCATATGCACACTACTACTCCTACTTCTCAAACACGAAAAAACAAAGA
ATTACTCGTCTCTCCATTGGTACCATCTTCTAGGAAATTACATGAGCGACGCGGCCAAACGCACCTCGTCGCGGG-----
------CCACGCTACCCCCACGCTATATAAGCCCTAGCCATCGCCCAAACGTGACACACACCCAGACAATCAACGG-CCC
CCCACGCACGCACACATCAAGC-GCAGCTGATCCCCCAGTTGATCGATCCGTCAGCTAGCTAGCCATG---GCCATGGCC
GGGAGGAAGGTGACGACGAGCAGCGCCAGCGTCGCCGCAGCGCTGGTGGCGCTGCTGGTCGTGGCGGCGGCGTCGGGCGC
GGCCGGGATTCATGTGTGCAACGTGGACACGGGGAGCATGCTGAACAACTGCAGGTCCTACTGCTCGGTGGGCAGCAACG
AGGCCAGCCCCAGCGGCGCGTGCTGCGGCGCGGTGCGCGGCGCCAACTTCAAGTGCCTCTGCAAGTACAAGGGCTTCCTG
CCCAAGGACATCGACGCCAACCGCGCCATGCAGATCCCCGCCAAGTGCGGCTACGGGCCGGCCTCCTGCTAGTCACC---
---CACTACCAACAGC----------------------------------------------------------------
---TTGCTACCAACTTTCACTCGTTCGTAGGAGTGTACGTACGTAGGTTGATCTGAT-----------------------
GTGCGTGCATGCTTTGTGTTGGCCATGCATGC---TA---CTACCTTTGTATCCTCTTCCGCTTTTCCTAAGTCATGTTG
CTGTGTGTCCACAACTATGTGGCAGAAATAAAACTTATTTCCCGCGTCTTTCTCTATATGTTAGATTTTTTTGGTCATCT
ATTAATAATGCCAATAAGTTCTATGAAACTTTAAAAAATATTCCAAAAAACCATTTCTAAACATTTGGGTCAACACTACA
AACGATCATAGGTCAGAGGTGCCTGCA--AGAGTCTTCGCAAAATGTAAACAAAATTTAGAAAGTTATATATAGCGATAT
CACTAGTTAAGGAATGCCCCTTGTGAAGAGTGAAATCCACAAAACCATCACAATTGTGACATCAATAACAAAAAACCACC
ACT--TTACGTTTTATTAGCAAGATGCACCAAATGCAATGTTATCTTTGAC-AAAAGAACACTAAATGCCCCTTGACCCA
GGTATTGATGTGGCAAATGACAGACGTTGCAAAGAGCAGGC---ATGGGGTGATGATCGTTAACTAGCAAGGCGTTAAGA
TGACCAACCGACTGTCTACTACAACAAGTTTTGCCCAACTCCGGTGATGAATGGGCGATGACGGCGGCGCGCCTTCGGCT
CGCTTCAATGCTTGTAGTCGTCGCTAGGTGGTCTATGAATCTGGATGCAATTTTTATTATTTCTGGTGTTCGTTATACTG
TCATGATTGAAGACGAATAGATCGGATGTTTTTCGTAAAAAAAAGATGACCAAAGAGCCCACTCATCAATATGTTCCCAT
GCTCACCGTCACCGAGTATGAACTGGGGTGGAGAGCCAAACCACCCGGCTGCAGATGAGATGTAGTGGTGAGAGAGGTGG
AGATGTGAAGTATCGTTTAACTAGTGATTTCGCCGCCGCAAGAGGTGCCCACTTGTCGCAAC
>chr3D_232
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-----------------------------------------------------------------------TTATGTGGA
TAATGAGATTGGGAGATAATTGCTATCTTGTTACACAGAAGAAAATTG-GATTCAAATTTGATATTTTTCGAACTTGCAC
CTGTCCTTTTTCCTAAAGAAACATCGGTGGTTCTTCTCTTTTGCTCTCTTTCCTCGTTTGTTCCTCGGTTTGCTCCGGTA
CTGGTC-AACGTCTATGGCATGACCTCACCTCCATGAATCTCTCCCATCGTCACTTTGGTTCTTTCCGGGACAATAAAAG
ACCTCCACCACGTCAGACAACCTACGTACCTCTTGTAGAAACATTGTTCAACACGGCTCTTGCTTGGAGACATGACGAGA
ACCTCAAAATAGTATTCCTCCAAAAGTTGGTTGATTAGGTA-----GCGGTCTCAATCTTCTTCAAGTGTCACTAGCTAG
TGGAGCACTTGTCCAACTAGTAGTGGCTGCTGTCTGCCGCCTCTTTCTCCTCTAATTCTC--TACACCGCTTTCACAGTC
AACGGTCTCATGCCAGTCCCTTGTTCAAACAATCATATGCACACTGTTAG---TACTTCTCAAACAAGAAAAAACAAAGA
CTTACTTGTCTCTCCATTGATAGCATCTTCTAGGAAATTACATGAGCGACGCGGCCAAATGCACGTCGTCGCGGG-----
------CCACGCTACCCCCACGCTATATAAGCCCTAGCAATGGCCCAAACGTGACACAC--CCAGATAATCAACTGCCCC
CCCACACACGCACACATCAAGC-GCAGCTGACCCACCAGTCGATCGATCCGGCAGCTAGCTAGCCATG---GCCATGGCC
GGGAGGAAGGTGACGACGAGCAACGCCGGCGTCGCGGCCGCGCTGGTGGCGCTGCTGGTCGTGGCGGCGGCGTCGGGCGC
GGCCGGGTACCATGTCTGCAACGTGGACACGGACAGCCTGGTGAACAACTGCAGGTCCTACTGCGCGGTGGGCAGCAACG
AGGCCAGCCCCAGCGGCGCGTGCTGCGGCGCGGTGCGCGGCGCCAACTTCAAGTGCCTCTGCAAGTACAAGGGCCTGCTG
CCCAAGGGCATCGACGCCAACCGCGCCATGCAGATCCCCGCCAAGTGCGGCTACGGGGCGGCCTCCTGCTAGTCACG---
---CACTATCCAGCTCGATTCACGCCGGCCGACGCGGTCCGCCGCCGGTCGCCGGTTGCACGAGTAAATCGTAACGTCGT
ATTTCGATGTCAACTTTCACTCGTTCGTAGGAGTACGTACGTTCTGGTCGGCTCGCTGATCCGAT--------------C
GTACGTGCGTGCTTTGTGTTGGCCATGCATGC---TACTCCTACCTTTGTATCCTCTTCCGCTTTTCGTAAGTCATGTTG
CTGTGTGTCCACAACGATGTGGCAGAAATAAAACTTATTTCCCGCGTCTTTCTCTATATGTTAGATTTTTTTGATCATCT
ATTAATAATGCCAATAAGTTATATGAAACTCGAAAAAAAAATGAAACA---CATTTCTAAACCTTTGGGTCAACACTACA
AACGATCATAAGGCAGAGGTGCCTCTGGGAGAGTCTTCGCAAAATGTATTTTT--TTTAGAAAGTTACATATAATGATAT
CACTAGTTAAGGAACACCCCTTCTCAACAATGAAATCCACGAAACCACCACAA-TGTGACGTCAATAACAAAAAAAACCC
ACCACTTTCGTTTTATTAGCAAGATGCACCAAAGGCAGTTA-ATCTTTGACAAAAAAAACACTAAATGCCCCTTGACCCA
GGTTGTGATGTGACAAATGGCAGACGTTGCGAAGAGCAGACGATATTGGGTGATGGTCGTTAACTGACAAAGCGTTAAGA
TACCA---------------------------------------------------------------------------
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>chr3B_253
GAGTA---------------------------------------------------------------------------
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------------------ATTGCTATCTTGTTACACAGATGAAACTTTTGATTCAAATTTGATATTTTTCGAACTTTCAC
CTGTCCTTTTTCCTAAAGAAACATCGGTGGTTCTTCTCTTTTGCTCTCTTTCCTCGTCTGTTCCTCGGTTTGCTCCGGTA
CGGGTC-AATGTCTATGTCATGACCTCACCTTCAGGAATCTCTCCCATCGTCACTTTGGTTCTTTCCGGGACAA---AAG
ATCTCCACCACGTCAGACAACC----TACCTCTTGTAGAAACATTGTTCAACACGGTTCTTGCTTGGAGACATGACGAGA
ACCTCAAAATAGTAGTCCTCCAAAAGTTGGTTGATTACTGCTGGTGGCGGTCTCAATCTTCTTCAAGTGTCACTAGCTAG
TGGAGCACTTGTCCAACTAGTAGTGGCTGCTGTCTGCCGCCTCTT-CTCCTCTAATTGTC--TGCACCGCTTTCACAGTC
AACGGTCTCATGCCAGTCCCTTGTTGAGACAATCATATGCACACTGTTAG---TACTTCTCAAACAAGAAAAAACAAAGA
ATTACTCGTCTCTCCATTGATAGCATCTTCTAGGAAATTACATGAGCGACGCGGCCAAATGCACGTCGTCGCGGG-----
------CCACGCTA-----------TATAAGCCCTAGCCATCACCCAAACGTGACACAC--CAAGACAACCAACTG-CCC
CACACACACGCACACATCAAGC-GCAGCGCAGC------TCGATCGATCCGGCAGCTAGGTAGCTATG---GCC---G--
-GGAGGAAGGTG---ATGAGCAACGCCGGCGTCGCGGCCGCGCTGGTGGCGCTGCTGGTCGTGGCGGCGGCGTCGGGCGC
GGCCGGGATTCATGTCTGCAACGTGGACACCGGGAGCATGGTGAACAACTGCAGGTCCTACTGCACGGTGGGCAGCAACG
AGGCCAGTCCCAGCGGCGCGTGCTGCGGCGCGGTGCGCGGCGCCAACTTCAAGTGCCTCTGCAAGTACAAGGGCCTGCTG
TCTAAGGACATCGACGCCAACCGCGTCATGCAGATCCCAGCCAAGTGCGGCTACGGGGCGGCCTCCTGCTAGTCACG---
---CATTATGCAGCTCGATTCGCGCCGGCCGACGCGGTCCGCCGCCGGTCGCCGGTTGCACGAGTAAATCGTAACGTCGT
ATTTTGATGTCAACTTTCACTCGTTCGTAGGAGTACGTACGTTCTGGTCGGCTCGCTGATCCTAT--------------C
GTGCGTGCGTGCTTTGTGTTGGCCATGCATGC---TAC------CTTTGTATCCTCTTCCGCTTTTCGTAAGTCATGTTG
CTGTGTGTCCACAACTATGTGGCAGAAATAAAACTTGTTTCCCGCGTCTCTCTATATAGA------TTTTTTTATCATCT
ATTAATAATGCCAATAAGTTATA---------------------------------------------------------
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>chr3A_833
AGCGC---------------------------------------------------------------------------
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--------------------------------------------------GCGGCCACATGCGCGTCGTCACGGGCCACG
GTATCCCCACGCTA-----------TATAAGCGCTAGCCATCGCCCA-CCGTGACACAC--CCAGACAACCGACTG-CCC
CCCACACACGCACACATCAAGCAGCAGCTGATCCACCAGTCGATCGATCCGACAGCTAGCTAGCCATG---GCC---GCC
GGGAGGAAGGTGACGATGAGCAGCGCCGGCGTGGCCGCCGCGCTGGTGGCGCTGCTGGTCGTGGCGGCGGCGTCGGGCGC
GGCCGGGCTCAGGGTCTGCAGCGTGGACAGGGACAGCGTCGTCAACAACTGCAAGTCCTACTGCACGGTGGGCAGCACGG
AGGCCAGCCCCAGCGGCGCGTGCTGCAACGCGGTGCGCGGCGGCAACTTCAAGTGCCTCTGCCAGTTCAGGAACGCGCTG
TCCCCGGACATCGACGGCAACCGCGCCATGCAGATCCCCGCCAAGTGCGGCTACGGGGCGGCCTCCTGCTAGTCACCGTC
ACGCACTATGCAGCCCGATACGCGCCGGCCGCCGCGGTCCGCCGCCGGTCGCCGGTTGCACCAGTAGATCGTAACGTGGT
GTTTTGCTGTCAACTTTCAGTCGTTCGTAGGAGTACGTACGTTCTGGTCGGCTGGCTGATCCGAACGCGCTCCTGCGTGC
GTGCATGCATGCTTTGTGTTGGCCATGCATGCTAGTAC------CTTTGTATCCTCTTCTGCTTTTCGTAAGTGATGTTG
CTGTGTGTCTACAACCATGTCGCAGAAATAAA-CTTGTTTCCCG------------------------------------
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>chr3B_833
AGCGC---------------------------------------------------------------------------
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--------------------------------------------------GCGGCCACATGCACGTCGTCACGGGCGACG
GTATCCCCACGCTA-----------TATAAACACTAGCCATCGCCCA-ACGTGACACAC--CCAGACAACCGACTG-CCC
CCAACACACGCACACATCAAGC-GCAGCTGATCCACCAGTCGATCGATCCGACAGCTAGCTAGCCATGGCCGCC---G--
-GGAGGAGGGTG---ATGAGCAACGCCGGCGTCGCTGCCGCGCTGGTGGCGCTGCTGGTCGTGGCGGCGGCGGCGGGCGC
GGCCGGGTACCATGTCTGCGACGTGGACACGGACAGCATGGTGAGCAACTGCAGGTCCTACTGCACGGTGGGCAGCACGG
AGGCCAGTCCCAGCGGCGCGTGCTGCGGCGCGGTGCACGGCGGCGACTTCCACTGCCTCTGCAAGTACAAGGACGTGCTG
CCCAAGAACATCGACGCGAACCGCGCCATGCAGATCCCCGGCAAGTGCGGCTACGGGGCGACCTCCTGCTAGTCA--GTC
ACGCACTACCAGCAGC----------------------------------------------------------------
---T----------------------------------------------------------------------------
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>SNPs
-SSS-SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS---------
---------------------------------------S------------------------------S---------
-----------------------S--S-----------------------------------------------------
------S--------------S------------------------------------------S---------------
----------------S-------S------S---------S--------------------------------------
-------------------------------------------------------S------------------------
-----------------S--S---------------------------------S-SS-SSS------------------
--S-----------------S------------------------SS--SSSS-------------S-------------
-------------------S--S------------------------------------S----S---------------
-----------------------------------------------------------SS-------------S-----
-----S----------------------------S-----S----------S----------------------------
---------------------------S----------S-----------------------------------------
---------------S------------------------S-----------------------S---------------
--------------------------------------------------------------------------S-S---
---------------------------------------------------------S----------------------
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--------SS------------------------SSSSSSSSSSS---S-SSSS-S------------------------
-------------------------------------------------------------------S------------
-------------------------------------------------------------------------S------
--------------------S---------SS------S-S-SS--S-SSS-----------S-----------------
----------S-S-----------SSS---------------------SSSSSSS------------S-----SS-----
--------------SS------S-S--S-S----------S------S-----S------S--------------SSS--
--S----S-------------------------S---S-SSS--------------S-----------------------
---SS-------S------S----------S--------S------S--------S---------SS---S---------
-SS-SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
>forward_407
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-------------------------------------------------------------------GTTTGCTCCGGTA
CTGGTCA-------------------------------------------------------------------------
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>reverse_2105
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------------------------CAAGTTTTGCCCAACTCCGG------------------------------------
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