>input_sequence_84013
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-------------------------------------------------------------------ATGGTGGTCTCCC
AGTACATGGCGGCGGCGCCGGGGGACTGGATGCGGGTGAGCTGCGAGTCCTCCAGGCGCGCCAGGAGGCCGCTCCGCTGG
CTGAAGAACCCCGTGAGGCCGTGCCGGATCACCTCCGCCGTGCCGTCGCTCCAGCTCGACAGCGTGGACGGCCCCACGTC
GAGGCGCAGCACGAAGCAGTCCTCCCCGTCGACCTGCTTCTCGCCGGCGTGCTCCGCCGTCGAGAAGATGGACGCGATCA
TCACCGGGTCCAGGCCCTGCATGTGCATGGACAAGATCGACATTCAATTCGAAACCACATCATAG---------------
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>chr4A_1_TraesCS4A01G020700
TGACACGCGCAGGTGCTGATGCCGCCCGCGCAAGGGACACGCAGCTCCGGACAAGGAGGAGCGGACAGCCGGTAGTAGCC
GCTACAGTGCAGTGACGCGTGCACGTGTACTATCG---TCGTCAAGGAGAAAGAGGGCGTGCAGACACTGTC-AAGTGCT
AAACCTGCCACCAACCCTCGTCGTTAACAGGTCAGGGGAGTGGCCGCTCCGCTGATCTCATTGGAACTCACCTACTGTTG
ATGT--------AATGATCTTATCGCACGACTTCTCATGCAGATCGGCGACCAAGGCAGGCCGGAAGGGATCAAGCGTAG
GTC-----------------------------------------------------------------------------
-----------------------------------------------------AGTACGTACAAAGGTTCAGACAAATGC
AGCTCACATGCAAGGTTCAGACAAATTCCAAGAAGGCAGCAGTACATTAACAAGGTAGAATAAGAGAACCAAACAAAGCT
GTTTCCTAGATGCATGGAGACACGTACCCTGAATCTTTCTTACAGATTTCAGCAAGAACAACACAGGATTCTTGTACAAC
GGGTGCAGGGTCTATGTGAATCAAGGAGTTCATCTAAAGAAGGTTTGAGTTTTTAC------------------------
---------------AAACTGTGAGTTTTTCTTTCTTTGTAGGTAAAAA--CCCAGGGTACACATATGTATGTACACGCG
CTTGCATTTTCTCCGTGCCACAATCACAGACAATAATCGACACACCGACGAAACTAAACAAAACACTACTGTAATACTAG
GTGTTACACTTACACCACTCTGCTGAGCCTGCGTACGATCGAGTGGT----TTACTTGCCGCCGCCGGCGGCCATGGCGT
CGTAGAAGCGGCTCCGCCGGACCTCCTCCGGCGGGATGAAGGCGTCGGGGCCGAGCCCCGGCACGTCGAACGCCACGTCG
TCGATGGTCCACGACTCCTCCATCCGCGTCACCACCCGCGCGGCGCGCACGCCGACGCCGAACCGGGCGAGGTGCGCCGT
GGACCGCCCCGCGTGCGCCACGGTGACACCGCCGTCGACGGCGCGGTAGTCGGCGAGCGTGGACGCGATGGTGGTCTCCC
AGTACATGGCGGCGGCGCCGGGGGACTGGATGCGGGTGAGCTGCGAGTCCTCCAGGCGCGCCAGGAGGCCGCTCCGCTGG
CTGAAGAACCCCGTGAGGCCGTGCCGGATCACCTCCGCCGTGCCGTCGCTCCAGCTCGACAGCGTGGACGGCCCCACGTC
GAGGCGCAGCACGAAGCAGTCCTCCCCGTCGACCTGCTTCTCGCCGGCGTGCTCCGCCGTCGAGAAGATGGACGCGATCA
TCACCGGGTCCAGGCCCTGCATGTGCATGGACAAGATCGACATTCAATTCGAAACCACATCATAGTTCTTTCTTCAGTCA
CACCAACAACGACTTCGGAGAACAGTGTAACTCTGCAAGTCTTCTGAACATTGGAACCGATGTGATTTTCAAAGAATTAC
CACACTGAAAACTGAGAACTGCTG---CTCTGCAGTCTGCTTCTAGGTCTACATGTGGACACTAGACTAGTGAC------
----AGAAATGGGATGTCAGTGAAGCTGATCAGATA----ATAACTC-TGCTTGGCAAGTGGACATATGGATAGCATGTC
AGTGCCTGGCGCTTTTGGACCATCAGTTTATGGCCAAGTACAGAGCCTCTCACGTGGATTTCTACTATTCTTACGCCATT
TACTCCAACTGGTGAAAAATTACTCAGCTACTCCTAATACACACACGTTAGATCAAAGTACTCACATCCTATGAGAATAT
TCTAGAGGGGCTGGCAGTCTGGTAGCAAACGAGTACTCCCTCCATTCCATAATGTAGTGCTTTCTCTATTTCCGTGCTTC
AACTTTGACCATAAATTTAACTATCAAGACCGATTGCGGCGGGTGCAAAAATTATATCAATGAATTCGTATTCGAAAGAA
GTTTTCAATTATATAATTTTTTCTCCCGCCGTAGTTGGTCTCGTTGGTTAAATTTATGGTCAAAGTTGGACCTCGGGAAG
CGCGGGCGCACTATATTTTGAAATGAAGGGAATATATAATCTGTGTTGTGTCACCATCT-GGCTTAGGTAAGAACATGCC
ACTAGTGCATACATGGTTTATTGTCATGGAGCAGAGGAAGCTGCTGATATAGAAATGCAGCACCCCTAAATTAAACACAA
TTGAGGTACAATCTTTGCTCCACTATGAACAGCTAACAGCTTCCATATATATTGTGCGCGTCGTCCGTACGCTTTCTTCA
AGTAGGCCACACTTGTGGTATTTCCTATCTTCTACACAAAGGAACTTGCTGAAACTTTCTCTAGTCTTCAAGTACACAAG
GAAACTTGCTGAAACTTTCTCTGGTCTTGAAGTGACATTGCAGA
>chr4D_1
TGACACGCGCAAGTGCTGATGCCGCCCGCGCAAGGGACACGCAGCTCCGGACAAGGAGGAGCGGACAGCCAGTAGTAGCT
ACTACAGTGCAGTGACGCGTGCTAATGTACTATCATCATCATCAAGGAGAAAGAGGGTATGCGGACACTGTCAAAGTGCT
AAACCTGCCACCAACCATCGTTGTTAACAGCCCAGGGGAATGGCCGTTCTGCTGATTCCATTGGAACTCACCTCACCTGC
TGCTGATGTAACAATAATATTGTTGCACAACTTCTCATGCAGATCAGCGACCAAGGGAGGCCGCAAGGAACCAAGCGTAG
GTC-----------------------------------------------------------------------------
-----------------------------------------------------A----GTACAAAGGTTCAGACAAATGC
AGCTCACATGCAAGGTA---C----TTCCAAGAAGGCAGCAGTACATTAACAAGGCAGAATAAGAGAACCAAACAAAACT
GTTTCCTAGATGCATGGAGACATGTACCTTGAATCTTTCTTGCAGATTTCAGCACGAACAACACAGGATTCTTGTACAAC
GGGTGCAGGGTCTATGTAAATCAAGGAGTTCATCTCAAGAAGGTTTCAGTTTTTACAGGCAGCTA---------------
----------CTTAGAAACTGTGAGTTTTTCTTTCTTTTTAGGTAAAAA--CCCAGGGTACACATATGTATGTACACGCG
CTTGCATTTTCTTGGTGCCACAATCACAAACAATAATCGACACACCGACGAAACTAAACAAAATGCTACTGGACTACTAC
GTGTTACACT-----------------CCTGCGTACGATCGAGTAGTACGTTCACTTGCCGCCGCCGGCGGCCATGGCGT
CGTAGAAGCGGCTCCGCCGGACCTCCTCCGGCGGGATGAAGGCGTCGGGGCCCAGCCCCGGCACGTCGAACGCCACGTCG
TCGATGGTCCACGACTCCTCCATCCGCGTCACCACCCGCGCGGCGCGCACGCCGACGCCGAACCGGGCGAGGTGCGCCGT
GGACCGCCCCGCGTGCGCCACGGTGACGCCGCCGTCCACGGCGCGGTAGTCGGAGAGCGTGGACGCGATGGTGGTCTCCC
AGTACATGGCGGCGGCGCCGGGGGACTGGATCCGGGTGAGCTGCGAGTCCTCCAGGCGCGCCAGGAGGCCGCTCCGCTGG
CTGAAGAACCCGGTCAGGCCGTGCCGGATCACCTCCGCCGTGCCGTCGCTCCAGCTCGACAGCGTCGAGGGACCCACGTC
GAGGCGCAGCACGAAGCAGTCCTCCCCGTCGACCTGCTTCTCGCCGGCGTGCTCCGCCGTCGAGAAGATGGACGCGATCA
TCACCGGGTCCAGGCCCTGCATGTGCATGGACAAGATCAACATCAATAT----------------TTCTTTCTTTAGTCA
CACTAACAACGACTTCGGCGAACAGTGCAGCTCTGCGAGTCATCTGAACATTGGAACCGATGTAATTTTCAAGGAATTAC
CACACCGAAAACTGTGAGCTACTGCAGCACTGCAGCCTGCTTCTAGTTCTACATGTGGACACTACACATGCAGCATGACA
TGCTAGAAATGGGATGTCAGTGAAGTTGATCAGATAGATAACTCTGCTTGCTTGGCAAGTTGGCATATGGATAGCATGTC
AGTGCCCGGCGCTTTTGGACCATCAGTTTATGCCCAAGTACAGAGTCTCTCACGTGGATTTCTGCTATTTTTACGCCATT
TACTCCAACTGGTGAAAAATTATTCAGCTACTCCTAATACACACACGTTAGATTAAAGTACTCATATCCTACGAGAATAT
TCTAGAGGGGCTGGCAGTCTGGTAGCGTACGAG-----------------------------------------------
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>chr4B_1
TGACACGCGCAAGTGCTGATGCCACCCGCGCAAGGGACACGCAGCTCCGGACAAGGAGGAGCGGACATGCGGTAGTAGCT
ACTACAGTGCAGTGACGCGTGCTCGTGTACTATCATC---GTCAAGGAGAAAGAGGGCATGCGGACACTGTCAAAGTGCT
AAACCTACCACCTACCATCGTTGTTAACAGCTCAGGGGAGTGACCGTTCTGTCGATTCCATTGGAACTCGCCTCACCTGC
CGTTGATGCAACAGTAATAGTATTGCACAGCTTCTCATGCGGATCAGAGT--AAGGCTGGCCGGAAGGAACCAAGCGTAG
TTTTTTTTTTTTTATCAAAGAAGGGCTTGCCCGATTTTCATTACTGAACCCCACCAAAAGTTCATAACCGAGTTCAGCTT
AAAAGAAAGGACTAAAAACGCTACCAAAATGACACCAAGCGTAGGTCAGTAGTA----GTACAAACGTTCAGACAAATGC
AGCTCACATGCAAGGTAGTAC----TTCCAAGAAGGCTGCAGTACGTTAACAAAGTAGAATAAGAGAACCAAACAAAACT
GTTTCCTAGATGCATGGAGACACGTACCTTGAATCTTTCTTGCAGATTTCAGCACGAACAACACAGGATTCTTGTACAAC
GGGTGCAGGGTCTATGTAAATCAAGGAGTTCATCTCAAGAAGGTTTGATTTTTTTTTACACGTAGCCACTCTCACGGTCA
CTCACAGATGCTTAGAAACTGTGAGTTTTTCTTTCTTTTTAGGTAAAAAAACCCAGGGTACACATATGTACGTACACGCG
CTTGCATTTTCTTGGTGCCACAATCACAAACAATAATCGACACACGGTCGAAACTAAACAAAACACTACTGGACTACTAC
GTGTTACACT-----------------CCTGCGTACGATCGAGTAGT----TCACTTGCCGCCGCCGGCGGCCATGGCGT
CGTAGAGGCGGCTCCGCCTGACCTCCTCCGGCGGGATGAAGGCGTCGGGGCCCAGCCCCGGCACGTCGAACGCCACGTCG
TCGATGGTCCATGACTCCTCCATCCGCGTCACCACCCGCGCGGCGCGCACGCCGACGCCGAACCGGGCGAGGTGCGCCGT
GGACCGCCCCGCGTGCGCCACGGTGACGCCGCCGTCGACGGGGCGGTAGTCGGCGAGCGTCGACGCGATGGTGGTCTCCC
AGTACATGGCGGCGGCGCCCGGGGACTGGATGCGGGTGAGCTGCGAGTCCTCGAGGCGCGCCAGGAGGCCGCTCCGCTGG
CTGAAGAACCCCGTGAGGCCGTGCCGGATCACCTCCGCCGTGCCGTCACTCCAGCTCGACAGCGTCGAGGGGCCCACGTC
GAGGCGCAGCACGAAACAGTCCTCCCCGTCGACCTGCTTCTCGCCGGCGTGCTCGGCCGTCGAGAAGATGGACGCGATCA
TCACCGGGTCCAGGCCCTGCATATGCATGGACAAGATCAACGTTCAGTCCACAA--------------------------
-----------------GCGAACAGCGTAACTCTGCAAGTCTTCTGC------------ATGTAATTCTCAAATAATTAC
CACACTGAAAACTGTGAGCTACTGCAGCTCTGCAGTCTGCTTCTAGTTCTACATGTGGA--------------C------
----AGAAATGGGATGTCAGTGAAGTTGATCAGATA----ACTCTGCTTGCTTTGCAAGTTGGCATATGGATAGCACGTC
AGTG-CTGGCGCTTTTGGACCATCAGTTTATGGCCAAGTACAGAGTCTCTGACGTGGATTTCTACTATTTTTACGCCATT
TACTCCTACTGGTGAAAAATTATTTAGCTACTCCTAATACACACACATTAGATTAAAGTACTCATATCCTATGAGAATAT
TCTAGAGGGGCTGGCAGTCTGGTAGCAAACGAG-----------------------------------------------
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--------------------------------TATATAATCTGTGTTGTGTCACCATCTTGGCTTAGGTAAGAACATGCC
ACTAGAGCATA----GTTTATTGTCATGGAGCAGAGGACGCTGCTGATATAGAAATGCAGTGCCCCTAAATTAAACACAA
TT---GTACAATCTTTGCTCTACTATGAACAGCTAACAGCTTCT------------------GTCCTTACGCTTTCTTCA
AGTAGGCCACACTTGT---ATTTCCTATCTTGTATACAAA----------------------------------------
GAAACTTGCTGAAAGTTTCTCTAGTCTTGAAGTGACA-------
>SNPs
-----------S-------------------------------------------------------------------S
S---------------------S-----------S-----------------------S---S-----------------
----------------S----S--------S---------------S--S------SS---------------SSSS-SS
SSS------------S--S----S----S----------------S----------------------S-S---------
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------------------------------------------------------SSSS----------------------
----------------SSSSSSSSS----------------------------------------------------S--
----------------------------S------------S------------S-------------------------
-----------------S-----------------S--------------------------------------------
--------------------------------------S-----------------------------------------
------------SS--------------S------------------------------------------S-S-----S
----------SSSSSSSSSSSSSSSSS-----------------S-------S---------------------------
----------------------------------------------------S---------------------------
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---------------------------S----------------------------------------------------
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-----------------------------------------------------------------S--S--S--------
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--------------------------------------S-------S---SS--SSSSSSSSSSS---------S-----
---S--------------S--------------------------------------------S----------------
--------------S--S--S-------------------------S-----------------S--SS-SSS-------
-------------------------S---------------SSSSS--------------S-S-----------------
---------------------------------------------S-----------------------S----------
----------------------S------------------------------S----------S---------------
---------------------------------SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS------------------------------------------------
-----S-----SSSS-----------------------S---------------------SS------------------
--SSS---------------S----------------------SSSSSSSSSSSSSSSSSSS----S-------------
----------------SSS------------S--S-----SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
--------------S-------S--------------SSSSSSS
>forward_498
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------------------------------------------------------------------------------GC
AGCTCACATGCAAGGTTC--------------------------------------------------------------
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>reverse_2137
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--------------------------------------------------------TGGTCAAAGTTGGACCTCGG----
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