>input_sequence_79931
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----------------------------------------CTATAAAAAATTCGTTTGAGAGATGTATACCCTCATTGTA
CCCTATTTTTTTCAGCCACCGACTCTCGTCCCTCCTTCCTGTTCCTCGTTCCCATCGTACCGAAAACATGGCAACTATGA
TGTTAACACCCTATTGCTTTGAAAGATTTGACTGAGCTCAAAGCCTCAACTACCGTCCATATGCTTCCCCAGGAAGCTGC
CGGGCTGCCTGGGGATGCTAGGTAGCAAATAAGTCAGAAACATGGCGGAGGCTGTTGTCGGGCACCTGGTGGTCATGCTC
GGCTCGGCGCTGGCGACAGAGGCGGCCACCTTCGGCTGGGCGCTGCTGTGCCAGGAAACCGCCGCCCTGAGGGGCCTCTT
CGGCAAGATCCGCGAGTCCAAGGCGTCTCTAATGAATTCATTTTCATAATACCCTAAACCTCGACATGAGTGCAGTGTCA
TCCTGAAGCA----------------------------------------------------------------------
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----------------------------------------------------------------------
>chr1A_1_TraesCS1A01G017100
AAATAGTAAATTTAACCGTCCATCAATTTTCGGCCGTCGGATCGGCATCGAACGCATGCGTGAGACCAGCGGTGGCACCT
TTACAAAAACACACCTGCCAGTGCCACTCCGCTCCATCTTTTTACACAAAACCCCTTCGTCTCTCCCGTGCAGACCCCAC
CTCGTCCAGGCAGCCATGGCAGGCCGGTCAGGCGCGGCGGTGGCCGCCGCCGGCGTCGTCCGCCGCCAACGCCTCGCGCT
CGCGGGTCTTATCTCTGCCGCGGCAGCCCGCCGCCCAACCCCTCATCCGTGTCATCTCCTTTCCTGTCTCCTCCGCAAGT
ACGCCGTCCGTTCGTCGACGCATCTCATGCTTCCTCCTCGGTCCCAGTAGTCCCGCCGCCCACCATCACCACACCCTCCC
CCTCCACCTCGTTGTATCCCAGCCCCTCCCCGTCTCCTCGTAAACAATAGTCCAGCACAAATTGCTCTGCTTCCCCGTCG
CTGATCTGCACGCACGTTAGGTGATCGACGAAATGCCATAGCATGCATATTTTTCCAACTTGTACGCATGTAGCACCAGC
CATTCAGTTGGTATGATGTGCATTACGGCATCCAAAGAGTGGAGATGGAATAAGATTGCATCACAACACTACTATGTTAA
CCATAGTAGCCGGAAACGGGGAACAGTAGGCCGTCCCTCGATCCCGATTCATCGACCCGGAATCAGATTCGGAAACGAGG
TCGGATTCAGTACGATTCGATGAAGATTCGGCGTCCCCGCAGCCCGCTCCTCGATTCAGGTTCCAGGATCCAACAGCCAA
AACGCGAGGCATAATTTACTCACGCCGTCGTTTCTTTTCTCAATGACTACTCGTTCTTCCTCCAGTCCATTAATTGCAAG
GGTCCATTAACAGCAAGGAATGCTGACCGTCACGGAGTCGTCGTTCTTCAGGAACTGTGTTCCTCGACCCATGGTACCGT
ACCGGGTTCATCGTACCCAAACGGATTGGATCGCGTCCCCCTATAAAAAATTCGTTTGAGAGATGTATACCCTCATTGTA
CCCTATTTTTTTCAGCCACCGACTCTCGTCCCTCCTTCCTGTTCCTCGTTCCCATCGTACCGAAAACATGGCAACTATGA
TGTTAACACCCTATTGCTTTGAAAGATTTGACTGAGCTCAAAGCCTCAACTACCGTCCATATGCTTCCCCAGGAAGCTGC
CGGGCTGCCTGGGGATGCTAGGTAGCAAATAAGTCAGAAACATGGCGGAGGCTGTTGTCGGGCACCTGGTGGTCATGCTC
GGCTCGGCGCTGGCGACAGAGGCGGCCACCTTCGGCTGGGCGCTGCTGTGCCAGGAAACCGCCGCCCTGAGGGGCCTCTT
CGGCAAGATCCGCGAGTCCAAGGCGTCTCTAATGAATTCATTTTCATAATACCCTAAACCTCGACATGAGTGCAGTGTCA
TCCTGAAGCAAAAAACAGTGTTATTGAAGCCCTGGCC------TTGACATGTGGTGTCATCGATTTATCAAGAAGCTATT
GCTTAAACATCTTCAACGCTACCAGCTCCCACGGCA-AGGCCACCTGTCCCACCTGGTTTCTCAAACTCATTTGTGGAG-
AAAAGG--TTCAGTCCCTGTCATCCAACATTGTGCTTGAACC-AAGGTGCACATCTTGACATTGTTTTAGTTATATACTC
CCTCCGTCCCATAGTATAAGAGCATTTTTTACGCTAACATTTCAAAAACGCACTTCTATTATGAGACAGAGGGAGTAGTT
AGATGTCAGCAAATGCAGGTAATTATCGTGTAAGCACCAACTCTGTAGTCTATACCATTAGCTGCTAACCTGTTTTATTA
GAAAAAACAAGTTTAGTTAGTAGTTACTTTCATCTTCCCTCTGACCAACGTTCGCTGGTCTAAAAAGTTTAGTTACATCA
CTGCAAAACGCCTATA----------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
------------------------------------------------------------TAGTGTTGCTG------CTG
AATTTTTCAAAAGACTTC--TATTGCTATCTCCATTT-------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------GGTGCCTATCCC
CATCAGGTTCATAACACTATTTGCAAAATCGGGGAATTCAGTATTCCATAGATTGATACACTATTAATTACATTGCAGGT
AAATTTCCTAGGCAC----GTAGTTCACAAATATATTTTTGGGCTACCAGAAGAGGT-GGACTGTACTCTGCAGATGAAA
AGGTATGTGGTACAGA---TCACCGAACAGACAATGAAACATATATATTGGCCTG-------------------------
--------------------------------------TAT-TTTTGTTTTCAAGCTATTCAAAACATACTTACAATGTA
CAAATAAGATAAGATTAAAAAACAGTTACGAAAACCAAGTGTGTAATTAAGTTGGATGTCTTCTTCTCATTAGCCACTTA
TTTCACCTTGGTCCAGATAAAATTGATGCTTGAGTTTGAACTGAATATGCGTTCGGATTATC------------------
--------------------------------------------------------------------------------
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-------------------------------------------------------------------TTCCAGGGGCAAG
A-------------------------------------------------------------------------------
---------------------------------------------------------------------------CTGTA
TTTGTATTGAGAAATCTGTGAAGAATAGTGGTTTCTATGCTCATCCCACCTTCTA-------------------------
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>chr1A_1239
CATGA---------------------------------------------------------------------------
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---------------------------------------------------------------------GTGCAGTGTCA
TCCTGAAGCAAAATACAGTGTCATTGAAGCCTTGGCCTTGATATTGATATGCAGTGACATCGATTTATCAAGAAGATACC
ACTTAAACATCTTCAACTCTACCAGCTCCCCACGGTGAGGCCACCTTCCCTGCCCGGTTTCTCAAATGCATTTGTGGAGA
AAAAGG--TTCAGTCCCAGTCATCCAACATTGCCTTTGAACCAAAGGTGCACATCTTGACATTGTTTCAGTTTTATTAGA
AAAGG---------------------------------------------------------------------------
--------------------AATTGTCATCTAAGTACCAACTCTGTAGTCGGCACCATTACCTACTAAACAGTTTTATTA
GAAAATAAATTAGTT-----TAGTTACTTTCTTCTC-TCTCTGACTGAAGTTCGCTGGTCTATAAAGTTTAGTTACTTCA
CTGCTGGACTCCTATGTATTAACATCAGAAGGATCACAGTGTAGTGAAGTATGTGATGAATTACTGCTGTCAGTTTTTAT
TCGTCTCTAATGGATTAGTATTTTTTCTTTTCTTTTAAGCCTCTCCAGCTCCTCGTCCC---------------------
------------------------------CCCTCCCTGTGGCGGCTCATATAGTGATGGCCCCACCCCCACATA-----
-------------------------TGAAAGAGGATAGTCAATTTTTGTTTGCAAGATTGTAGTGTTGCTG------CCG
AATTTTTTAAAAAAGATTGGTATTATTATTTTGGCATATGAGACTGACATAGTGACATGTTCATTTTACTGGCCAACCT-
----------------------------------------------------------------AGAAATTTACAATCAA
AAGTACCAGCCCTATTAGCATCATTAATCCTTTAGTATTGAAATATGGGAAACTTCAGAAAAATCACTTAATTTTTCTCT
CGTCTAAAGATTCTCATCCTGATCTCATCTTTCTCCTTAGATCCCTACGCCTTGAGCCATCTCCATAAGGTGCTCATCCC
CATCAGGTTTGTAACGCTATTTGCAAAATTCTGGAATTCAATGTTCCATAGATTGATATAGTATTAGTTACATCACAGAT
AATTTCCTTGTTTAAAACA-TAGTTCACAAATATAATTTTGGGCTACCAGATGAGGT-GACAGGTACTCCGCAGATGAAA
ATTTATGCGGTACAAACATAGTTCACAAATTTATGCAGATAAACATAGTTCACAAACATAGTTCACTCTTATGTGCTCAT
TAAGAAACGTCTGTCCTTATCGCCATTTAAGCTCGGAATAAATTTTCTCCACGGCGCAAGGACGTATACATGACTAACTT
GATGGACGAGCTGCCATTTGGACCTAGTACCTGTTGCTGATCTTATTGGCTGC---------CTTGCCAGTTGCCGCCCA
ATTGTAAATGGTGCTGCTAGAAGTGCCATTTTTTCTGCACTTTTCAGAGACTCGCCTCGGAGCTGCAACGCAGGCGCATC
AGATACCAGGTAATTTAATGAACGAGTCGCCATTTGGCGCCCATGGATGGTTGCGGTTCGTATGGATGCTGGTGGAACGT
ACACTTCCCTCTTGATTTGGGCGGGGGTTGCTATTATGCAGGTGCAGTTGTTTTTCTGCGTGATGAGAATTTTTAACATC
AACATTCCTGAAGAAGAGTGGGACACAACACACATTTGCATTGATCTTGCTGAGCCGTATTTATTCAGGAGAGAACCTCA
GGTGCCGAGCACCACTACTGTTTCTAACTGCACCACTACACGCCGTAAGTGGGTGATCATGGGAACATGGGCGCTGCGTT
CTTTGATTAGGCACAGAGGCACACAGCACAAACTATTTACCTTCTCTGGAAGTCATGTAGAAAATGAAATAAATCTTCTT
AAGGTATTGGACCAAGTAATCCTACTACTAATGTGATTTGCCTGCTCTGCAGCCCGGCCATGGTGGTTCTGTCCTGCTTG
AAGAGGATGAGGATGAAGAGCTCCACCCTTGTCGATGCCGAGAGAGAGAGAGAGAAACTTGTGGGGGAGGAAGATGAGGA
TAGGAGGTTGAGATTATATGCAGATGTCTCTAAGTTAAAACCACCTCTATCTAACAGTTCGGATCTTTTCCAGGGGCAGC
GAGGATGAAAGGAAAGCATCTCCAAATCCTCCCGAGGTTCGGCGATTCGTTTCGTTTCTCAACTGTTCCTACTGAATCCT
TGCTAGGTTCTTTGATACGGCTGTGGCCGTGTGCTTCCAGGAGTTAACAGTTAGTACTAGATGTGTCGATTGGTGCTGTA
TATCTTGGGAGGGATTTGGAAAACAGAAGAGTTTGGAAGTGTTTTTTGATGACTTTGGTTTAGGATCTTTTTTGGAGTTC
AAACCAAGATAATTTTACCTGTGCCCCTCTTGCTAGTATGACTGTCATATACTCCTACATAATATGAATCTTGGATTTAC
CAAGATGCATTCCAAAAGTTTGAGGTAGACAGCAAGTCAGCAACTACAAAATTTGGAAGCGGGGACAAGAAACGGGTCTT
GTGTGAGTCATCCTATAATTTGACAACATTGGAATTCTCGTCCAACAATATGTCCATTTGGATGTTCTGAAGAAAATAAG
TATTATGTCGTCCGTATATATTGTACACTTCCCCTCTTTTTGTTTCTTCCATTTATTATGTCCAATAATATAATTTTAGC
TTTTTTTTTAAAAGGAGGATGACCCCCGGCCTCTGCATCTGGACGATGCATACAGCCACTTTATTAATCATTTTCACAAT
ACCTTACAAAGTCATACAACAGTAAGACTAAAGCCGCCGTCTAAGCAACAAACTGTCGCTACACCTATCCAGTTGATGAA
GGGGCACAAATAGCCTGGGCCTAATACCAAATAGACATCGCAGCCAAGCCTAACATCTAAGACCTGATCCCCCAAGCTAG
CCACTTGCCGGGTCTGGGGCACATACTGGTCCGACGTGCTCTCAGAGGCCGCCGCCGCCAACTGCCACTGCTCCATCTTC
AGAACTGTACTGATGCATCAACCTTGCTCGGTCTAGCTATCGTCGACGCCACCACGGCGCCCAACAGCACCTCCTCCCTG
CGCGCAAACAGCCGTACACGTCGCGGTCGTCACTGGTACACCTCAGCACCATGCTGCCACGTACCACCAGCCGACACAAC
TTGAAGCCCTTGGAGGATTTGTCGTGCGTAGCACCTGCCGACCAGGCATGACCAAGCGTAGCACCTGTCGGTCAGGCATG
ACTTGACATCTCCACCGAAGCTCCGTGCAAGACGAAGCCGCTCCACCTCCTGCCTCGGACTTCCAGCACTGCTCCACAAA
ACGACGCTCCCAAGAGAAAAACGACACCGCGGTGCCGCCATCGTCCGGTCTGGAACACCAGATCCTAGGGTTTCCCCCGG
AGCAATACGAGTGGGTCGACGGTAGTCACATGACGATGCCTTCATCAAGGTAACGACGTGGAACGCCGCCATCGCCCGCC
GTCGGCTCGGTTTTCACCGGCAACTACGTCACCCCAACTCGCAGCTGGTGCCAGATGACAGATCCCGAGATCCGAACACC
CAGCCTCAGGCTGACCACCTCTGACGAAAGAGATGACCACCGCCGCCGGCTGCACTGGTCAGAACAGATCTGATCGGAGG
TGCCGCCGACGAGACCACCAGGCTCTCCACGCCGCCGTTGTCCGATCTGAAGGCAGCATGCACGCCGCGCAGCCAAGCCG
GCCGCCGTTGACGCAGCCGCCGCCGCCGCCCAAAGGGCCATCCGCAGCGCAGCAGCCCTGGCCTCCGCCGCGCCAAGCCG
TCGCCGTCCGAGGACGGGCCGGCCTCCCGCCGCCTGCCGCCATCCGCCGCGCTGCAGATCTCAGATCGGTCGCGCCACCA
CACGCCTTGGGGTCCTCCCCACCCCAGAGACGCGCGAGAGAGGAGATCCCCCGCCACCGCCGTCGGCCCCTGGGCTTAGC
CCGGCGGCGTCTTCCGGCGGCGGCGGAGGAAGGGGAGGAGGAAATTTGCGGCGGCGGCGGCTAGGTTTCTAGCCGCCCGA
GTCGCCCCAGGGGGAGGACGACGCGGGCGTCGGGCCTGCTTCTGGTTAAGCAAAAGATATAATTTTAGCTAAGAACATCA
AAGTTATCGTCCAATATTACTTCCACTTGCGTCTAAAGTTCTCGGCAGAATTTGCTTTAGAATATATTAGATCACCCATT
TTGTAGCCAACCTTACCAAATCATTCGTCCTCTTCTTCGATACAGTAGCAAAAATCCTCTACATCTGAGCTCGAAGCCTC
AACAACTATGGCAGAGGCTGTTGTCGGGCAGCTGGTAGTCACACTCGGGGCCGCGCTGGCCAAAGAGGCGGCGATCTTCG
GCGGGTCGCTGCTTGGCAAGGAAGCCACCGCCCTCAGGAGCCTCTTCGGCAAGATCCGCGAGTCCAAGGC
>chr1D_1423
--------------------------------------------------------------------------------
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--------------------------------------------------------------GACATGAGTGAAGTGTTA
TCCAGAAGCAAG--ACAGTGTCGTTGAAGCCTCGGCC------TTGGCATGCAGTGCCATCGATTTATCATGAAGGTACC
ACTTAAACATCTTCAGCGCTACCAGCTCCCAAGGCA-AGGCCACCTGTCCCACCTGGTTTCTCAAACGCATTTGTGGAG-
ATTTTTTTTTCAGTCTCAGTCGTCCAACGTTGCGCTTGAACCAAAGGT--ACATCTTGACATTGTTGTAGTTA-------
-----------------------------------------------------------------------------GTT
AGATTTCAGCAAATGCAGGCAATTATCATGTAA---CTAACTCCGTAGTTTGTACCATTAGCTGCTAAACAGTTTTATTA
GGAAAAATACTACTT-----TACTTACTTCCATATTGTCTCTGATTGATGTTCGTTAGTCTAAAAA--------------
-------------------------------------AGTGTAGTGAAGTATGGGATGAATTGCCGCTGACAGTTTTTAC
TCGCATCCAATGGATTCATCTCTTTTTATTCAATCTCTCATTTACATGTGCGCAACATATATAGCAAACTAATAGACTTA
TCCCTAAGCTTGTCCAACGGCCCAGCGCCTCCCTCCTTGTGGCGGCCCGTATAGTGCTGCCCCCAGCCCCACATGACAGA
GACACTGTTTAACTGGGGTACCCAGTGAAGGCGGATATTCAACTTGTGTTTGCAGGAATATATGTAATGTTGCTTCTCTG
ACTTCAAAAAGGGACTTC--TATTGTTATTTTTAACATACGGGACTG-ATAGTGACATGTTGATTTTACTAGCGACAACA
ACAACAACAAAGCCTTTAGTCCCAAACAAGTTGGGGTAGGCTGTTGATTTTACTAGCCCGATCAAGAAATTTACAGTTTA
AAGTATCAGCTCAATTAGCATCATTAGCCCTATTG------AAGATGGAAAACAATAGAAAATCACTATTTTTTTACCCT
CATCTGAAGTTTGTCATCCTAATTTAGAGTTTCATCGAGACT-CCTCCACCTTGTGCCATCTCCATACAATGCTTACCCC
GTCAGGT------------------------------------------------------------------------T
AAATTTCCTACTTCAGCATGTAGTTCACAGATATAATTTTGGGCTACCAGAAGAGGTCGACTCGTACTCTGCAGATGAAA
AGGTACGTGGTATACAGACTCACTGAACAAACAATGAAACATATATATTGGCCTG-------------------------
--------------------------------------TAAATTTTCTTTTCAAGCTATTCAAAACATACTTCCAATGTA
CAGATAAGATAATATTTGAAAACAGTTACAAAAACCAAGTGTGTAATTAAGTTGGATGTCTTCTTCTCATTGGCCACTCA
TTTCACCTTGGTCCAGATAAAACTGATGCTTGAGGTTGAACTGAATATGCGGTCGGATTATC------------------
--------------------------------------------------------------------------------
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-------------------------------------------------------------------TTCCAGGGGCAAG
A-------------------------------------------------------------------------------
---------------------------------------------------------------------------CTGTA
TTTGTATTGAGAAATCTGTGAAGAATAGTGGTTTCTATGCTCATCCCACCCTCTA-------------------------
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>SNPs
S-SS-SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS------------------
-------------S-------S---------S-------------------SS---S------------------S--SS
S------------------------------S-----------------------------------S------------
-----------------S--------------S-------------------------------------------SSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS---
----S--------------S-------S------S----------------S----------------S-S---------
-------S-SSSS-SSSSSS----------------SS-------SS-S---------------------------S---
----SSS--S-----S----------------------------------------------------------------
--------------------------------------------------------------------------------
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-------S-----------------S---S-SS-SS--------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
-------------------------------------------------------------------------S------
---------SS----S-------------SSS--------S-S---------------S-S-----S------SS---S-
----------SSS-S--------------------S-----------------------SSSS-----------------
--------------S--------------S--------------------------------------------------
----------------------------------------S-----S---------------------------------
--S-------------SS-----------S-----------------------------------------S------S-
----------------------S-----------S---------------------------------------------
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>forward_997
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-----------------CAAACGGATTGGATCGCGTC-------------------------------------------
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>reverse_1878
--------------------------------------------------------------------------------
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-------------------------------------CCTCTGACCAACGTTCGCT------------------------
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----------------------------------------------------------------------
