>input_sequence_82156
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-----------------------------------------------ATGGCCATGGCACCGCCTGCATCCGCCGTCTCC
TTCTCCCCCCGCCCGTCGACGGGAACGACTTTCCGGCCCCGCGCCGCATCCGCCTCTGGCTCCGTGGGCGCCGGGCGGGT
CCGCGCGGCGGGAGCCCCCGAGGGAGGCAAGTGGTGGGCGCCGCTGCTCGGCTGGTCCGGGCGGGCGGACTACATGGAGG
CCGCGGCACCGGCGCCAG------CGAT---GGTGGTGGCGGTGGAGGAAGAGAAGGCGGGGAGGTCGTTCGTGGGCGGC
CTGACGGAGGA----------------------------------------------GAAGGCGCGGCAGCTGCGGGCGC
GGATGGTGGAGACGGAGAGCTTCCACGACGCCATGTACCACTCCGCCATCGCCTCCCGCCTCGCGCGCTCCACCTAG---
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>chr1D_1_TraesCS1D01G118100
CTTCAAATAGGCTGCGCAGCGGAGCTCGGCCTTCAATTGCTGCGCAGGTGAGCGTCTCGCG-CATAAACCGCCCCCGCCG
AGGATGGTACGGGCGGTGCACGCCGCCGGCGCTTCGGGCGAACGACTTGCCATTCCGGGCAAGCAGCAGCGCGCTCGTCG
CACGGAGCACGCGGCACAGGCCACGGGGAGGGTGTGAAGTGAATGCACGAGGGCCGTGGGATAAATGCGGAGGATGGGGG
GATGCAGATGATAGACCGCAAGCCCGGAGGGTAGGCCGGCGCAGGGCGTGATGGCGCGGCAGGCGGCAGGCACCGGTTGT
CACAGAGAGCAGCGCGGACCAGCGGGTCAAGCGACTCGT-GGGGTGGCTCCGCTCCCAAGCAGCAGCCTCACTTGAAGGC
GCCGCAGAGGAGTGAATGGCCCGCAGGAGTGCGGCAGCGCTATCAGGGGAGCCGGGGGCGCTCCAGCGACGCCGCGGGTG
GCTGTGGCCGGAGGGGGATGAGCTGGCTGTGGACGACGAGCCCGGAGTGGGGTACGCCAGATCTGAGGTTGCCGACGCCG
GAGTGGCGGCCGTCGAGGGGCTGGTTGGTGGGGTGGGAGGGGAGCACGGCGAAGCGCGAGGTGGAGCCATTTTGCATTGC
GGTGCACGTGGCTAGATACGCAATATTTACTCTATCTGTTGTTCAAACTTTGTTGCGTTTCTCATACTGTATTTGCTGCC
GTC-CTCGCGGTGATCCAGGTGCGTGCATGAGTCTACTCGATCACACGTCACGCGTAACGGAAAAGCGCACCCCCACCCC
GCGCGTCCACGCGCCGTTCCTATCCACTCTTCATCCTCTTCCCCTGGCCTGGCCTGGCCCGTTATAAATTTCCGCCATCT
CCAGCTCTCCATCTCACAAGCTCA---AGCATTCACAGTCTACAACAATCCCCATCATCTCTCGCCAAACCGAAAGCAAA
GAAACCCCGTAG-TAGAATCTTACGAGCGAAGGAAGCGACCGAGCTAATGGCCATGGCACCGCCTGCATCCGCCGTCTCC
TTCTCCCCCCGCCCGTCGACGGGAACGACTTTCCGGCCCCGCGCCGCATCCGCCTCTGGCTCCGTGGGCGCCGGGCGGGT
CCGCGCGGCGGGAGCCCCCGAGGGAGGCAAGTGGTGGGCGCCGCTGCTCGGCTGGTCCGGGCGGGCGGACTACATGGAGG
CCGCGGCACCGGCGCCAG------CGAT---GGTGGTGGCGGTGGAGGAAGAGAAGGCGGGGAGGTCGTTCGTGGGCGGC
CTGACGGAGGA----------------------------------------------GAAGGCGCGGCAGCTGCGGGCGC
GGATGGTGGAGACGGAGAGCTTCCACGACGCCATGTACCACTCCGCCATCGCCTCCCGCCTCGCGCGCTCCACCTAGCTA
GGCCGCCGGACAGACCGCCAGCCAACTCGCCGACACTACCAGACAAGCTGATGTGCCCGTGCGTGTACCTAGTTGTTTCC
TCTTACGATCTGGGGATCA-CCAGTCGTCTCTGTTTGTAGCTGTTGTGACGGAGGAGCTTAGAGGAGAGAGGTCGGCAAT
GAGATCTAGTTTTAGGGTTGATCCATTCCCTTCGTCTCC-----------------CCGGTCTGCTTGTTTTAGAGGCGC
AGATGTTTCAATCTGATTCCCCGCATTTT--GTAACATTCGGGATCCGCAGTTAACATGTTGTCCCAGATCTGTGATACT
TGTGCTGGTAGCTGTTT----------------------------------TGGATCTGAACACCGATTAATTCTGGATC
TGAATA-------------CTCCAAGTTGTCTTCTCCTCAACAA------CTAGCATGTTTCTGTGTTATTAGCCCTAAC
ATTATGATGCAGCCAT-----AAATCAAAAACATTGTAAGTAGCTGCTACGCAGGATCTCTACCAACCTT----CACAAG
TTGATTGTGTTCGGTTGGGTTGCGGTGGGTAGACTATGTCTATGTGAAAGGAACTCCTCGCT-------TGCGTTACATT
ATATTATACTACTAGTTCATTAGTTTGTGTTACATTATATTATACTCCCTTCATTCCACAATGTAGTGCCTATAGATTTT
TTGAAGTCAAACTATGCCAACTTTGACAATTGTATAAAGAAAAACTGTCTACATCTACAATACTAAACCTGTATATTCTG
AAAATATAACTCATGATGTATTCAATGATGTGCATTTGGTATTTAGATGTACCTACTTTTCTCTATAAATATAATCAAAA
TTTATAATGTTTAACTTTTGCAAAAATCTATAGGCACTATATTACGGAACTGAGGGAGTAGTTCATCATAGTTCATTAGT
TTGCTCTTACATTATGGCGGTGGTGGAGTACTATACGAACTGATGAACCATTACCACCCACCATGATACGCAACTACAGT
ATCTCCAGATCTTC-TACTTAATTGCACAAAGTACTCTGCCTTGAGT
>chr4D_1
CTTCAAATAGGCCGCGCGGCGGAGCTTGGCCTTCAATTTCTGCGCAGGCGAGCGTCTCATGCCATAAACCGCCCCCGCCG
AGGATGGTACGGGCCGCGCACGCCGCCGGCGCCTTGAGCGAATGAGTTGCCATTCCGGGCAAGCAGCAGCGCGCACGTTG
CACGAAGCACGCGCCACATGCCACGGGGAGGGGGGGGA-TGAATGCGGGGAGGCCACGGGATAAGTGTGGAGGACGGGGG
GATGCAGATGATAGACAACAAGCTCGGAGGGTAGGCCGGCGCAGGGAGTGATGGCGCGGCAGGCAGCAGGCGCCGGTCTC
CGCTGAGAGCTGCGCGGACCGGCGGGTCAAGCGACGCGCAGGGGCAGCTCTGCCCCCGAGCAGCAGCCTCACTTAAAGGC
GCCGCAGAGGAGTGAATGGCCTCGAGAAGCGCGGCAGCGCTGTCAGGGAAGCCAGGGGCGCTCCAGCGTTGGCGC-----
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-----------------------------------------------------------GGGTGGCCGGAGGGGGACGAG
CTGTCGGTGGATCACGAGCCCGGAGTGGGGTACGCCAGATGTGAGGTCGTCGGCGCCGGAGTGGCGGCCGCCGAGGGGCT
GGTTGGTGGGGGTGGAGGGGA-----------------------------------------GCGCGGTGGAGCGCGCAA
GGGAGCCAT-----------------------------------------------------------------------
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>chr1A_696
TTTGCTCG------------------------------------------------------------------------
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----------------------------------------------------------------TAGTGTATTTGCTGCC
GTCTCTCGCGGTGATCCAGGTGCGTGCATGAGTCTACTCGATCACACGTCACGTGTAACGGAAAAGCGCACCCCCACCCC
GCGCGTCCACGCGCCGTTCCTATCCACTCTTCATCCTTTTCCCCTGACCCGTTAAT--CCGTTATAAATCTCCGCCATCT
CCAACTCTCCATCTCGCAAGCTCA---AGCATTCAAAGCTTACAA---TCCCCATCATCTCTCACCAAACCGATAGCAAA
GCAACCCCATACATAGAAGCTTACAAGCGAAGCAAGCGACCGAGCTAATGGACATGGCACCGCCTGCATCCGCCGTCTCC
TTCTCCCCCCGCCCATCGACGGGAACGACTTTCCGGCCCCGCGCCGCTTCCGCCTCTGGCTCCGTGGGCGCCGGGCGGGT
CCGCGCGGCGGTAGCCCCCGAGGGAGGCAAGTGGTGGGCGCCACTGCTCGGCTGGTCTGGGCGGGCGGACTACATCGAGG
CCGCGGCACCGGCGCCGGCGATGGCGATGGCGATGGCGGCGGAGGAGGAGGAGAAGGCGGGGAGGTCGTTCGTGGGCGGC
CTGACGGAGGA----------------------------------------------GAAGGCGCGGCAGCTGCGGGCGC
GGATGGTGGAGACGGAGAGCTTCCACGATGCCATGTACCACTCCGCCATCGCCTCCCGCCTCGCGCGCTCCACCTAGCTA
GGCCGCCGGACAGACCGCCAGCCAACCCGCCGACACTAGCAGACAAGTTGATGTGCCTGTGTGTCCTTTCTGCTATAATT
GTTGTTGTCA---------------------TGTGTTA----------------AAGTTTAGAGGAGAGAGGTCGGAAAT
GAGATCTAGTTTTAGGGTTGATCCATTCCCTCCGTCTCCGGCCACCGCGACGCTCGCCGGCCTGCTTGTTTTACCGGCGC
AGATGTTTCAATCTGATTCCCCGCATTTGTAGTAACATTAGGGATCTGCAGTTAACATGCTGTCCCAGATCTGTGATACT
TGTGCTGGTGGCTCTTT----------------------------------TGGTTCTGAACACCGATTAATTCTGGATC
TGAACTCTACGGTGCCGCGCTCCATGTTGTCTTCTCCTCAACAAACTATAGCAAG--GCTTCTGTGTCATTTGTCATAGC
ATTATGATGCAGCTATAAATCAAATCAAAAACATTG----CAGCTGCTACGCAGGATCTTTACCAACCTGCATACACAAG
CTGATTGCGTTCGGTTGGGTTGGGGTGGGCC----------ATGTGAAAGGAACTCCTCGCT-------TGCGTTACATT
ATATTATATATAGTAC----------------------------------------------------------------
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---------------------------------TACGAACTGATGAACCATTACCACCCACCATGATACGCAAC-----T
ATCTCCGGATCTTC-TACTTAATTGCACAAAGTACTCTGCCTCGAGT
>chr1B_742
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------------------------TGCATGAGTCCAGGCGATCATGCGTCACGCGTAACGGAAAAGCGCACCCCCACACC
GCGCGCCCACGCGCCGTTCCTATCCACTCTTCATCCTCTTGCCCTG--------------GTTATAAATTCCCACCATCT
CCAGCTCTCCATCTCGCAAGCTCAACCAGCATTCACAGTTTACAACAGTCCTCACCATCTCTCACCAAACCGAAAGCAAA
GAAACCCCGTAG-TAGAATCTTACGAGCCAAGCAAGCGACCGAGCTAATGGCCATGGCACCGTCAGCATCCGCCGTCTCC
TTCTCCCCCCGCCCATCTACGGGAACGACTTTCGGGCCCCGCGCCGCTTCCGCCTCTAGCTCCGTGGGCGCCGGGCGGGT
CCGCGCGGCGGGAGCCCCCGAGGGAGGCAAGTGGTGGGCGCCGCTGCTCGGCTGGTCCGGGCGGGCGGACTACATCGAGG
CCGCGGCACCGGCGCCGG------CGATGGCGGTGGTGGAGGAGGAGGAGGAGAAGGCGGGGAGGTCGTTCGTGGGCGGC
CTGACGGAGGA----------------------------------------------GAAGGCGCGGCAGCTGCGGGCGC
GGATGGTGGAGACGGAGAGCTTCCACGACGCCATGTACCACTCCGCCATCGCCTCCCGCCTCGCCCGCTCCACCTAGG--
--------------CCGCCAGCCAACTCGCCGACACAACCAGACATGCTGCTGTGCCCGTGCGTGTACCTAGTTGTTCCC
TCTTTCGATCTGGGCATCACCCAGTCCTTTCTGTGTTA----------------GAGCTTAGATGAGAGAAGTCGGAAAT
GAGATCTTGTTTTAGGGTTGATCCATTCCCTTCTTCTCCGGCCACCGCGACGCTCGTCGGTCTGCTTGTTTTAGAGGCGC
AGATGTTTCAATATGATTCCCCGCAT-----------------------------------GTCCCAGATCTGTGGTACT
TGTACTAGCATTGTTTCTGTGTTAAATCTGGATCTGAACACTGATTAAATCTGTATCTGAAAACCGATTAAATCTGGATC
TGAACATTATG-----GCGCTCCATGCTGTCTTCTCCTCAACAAACTATACTAGCATGCTTCTGTGTTATTTACCCTAAC
AGTATGATGCACCTAT-----GAATCAAAAACATTA----TAGCTGCTACGCAGGATCTGTACCAACCTT----CACAAG
TTGATTGTGTTCGGTTGGGTTGGGGTGGGTGGACTATGTCTATGTGAAAGGAACTCCTCGCTTGTCGCTTGCGTTACATT
ATAT----------AC----------------------------------------------------------------
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---------------------------------TACGAACTGACGAACCATTACCACCCACCATGATACGCAAC-----G
ATCTCCAGATCTTCGTATTTAATTACACAAAGTACTCTGCCTT----
>SNPs
------------S----S--------S-----------S---------S---------SS--------------------
--------------S-S---------------S-S-S-----S--S----------------------------S---S-
----S--------S----S-------------S-S-S-S-------SS-SS----SS-------S--S------S-----
----------------SS-----S----------------------S-----------------S------S-----SSS
-S-S------S---------S--------------S--S-----SS----S--S---S----------------S-----
---------------------SSS--S--S-----------S------S----S--------------SS-S---SSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS--S-------------
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----------------------------------------------S--S-SSSSSSS----------------------
---------------S-----------------------S-------S---------------S----------------
--------------------------------S-----------------------------------------------
--------------S--------------------------------S--------------------------------
---------------------------------------------------------------------------S----
----------------S-------------------------S------S------------------------------
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-----------------------------------------------------------------------------S--
----S---------S-----------S-S-----S-SSSSSSSSSSSSSSSSSS----------------------S---
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----------------------------S----------S------S------------S--------------------
-------------S------------------------------------------------------------------
----S-------------------S---------------------------------S------------S--------
-------------S----------------------SSSS-------------------S--------------------
----------------------S-------S-------------------------------------------------
--------SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS-----------------------------------------SSSSS-
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>forward_552
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----------------------------------------------------TACGCCAGATCTGAGGTTGC--------
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>reverse_1561
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----------------------------------------CTGTTGTGACGGAGGAGCTT--------------------
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