>input_sequence_82037
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--------------------------------------ATGGCAGTCTTTACGAAGAACAGCGTTGTTGCCGTGTGCTTG
GGGGCTCTCATGCTCATGACCACCCTT---CTCTCCTCGGAAGGTTCAGAGCTTGGTACGTGCGT----TCTCTTAAATA
GCATCTAC----CAG-TTTTCACAAGACGTATATATCTTGCGATGTTGAGCAT--GATGAATGTATTTTTATGTGTGTG-
----------------------------------------------------------------TGTTTG-----TGTGT
GTGTGTGTGCAGTTGGATGTTTGGAGCCCCACCAGAACTGCTTCCCAGATGACTGCCAGAGGACATGCGCGGACAATATT
ATTGGAAAAAATGTGACAGGTTCCTGCGAACCGGAGCATGGCCCGCTAAAACCGTATCCCGCGCTAGTGTGTTGTTGCTA
TAGAGACGGTCTCCGATCATGA----------------------------------------------------------
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>chr1D_1_TraesCS1D01G443900
GCAATTCTCCG-TTTGTTCGAAGCACATATTTTGTTTGGAAACAAAATAAATGTTCTGTGCAGGACGCAAAAATAATTCC
CAGGATTAAAATTAGCCACAATCAGGAAAGTTTGGTTTATATGGAAACAAAATTTGCCTCATATGGGAAGCAAAATCATA
CGGGAAGCAAACGTTGCTTCATATGGAAACAAAACTGAAAAGTTTTTGAAACAGTCTTATGCTCAATATAAGGAAGCATA
AAACACAGCGGGGATCTCTTTTTTCTAGATTTATTTGAATTTTTTTAAGCGCTAGAGTTATTTGATTCCCT--ATTAGAT
CAGAAGTTGATTTCACAAAACTATGGAAAAACGGAACCAGCGAACATGTAAT---AACAAATCCCACGTAATTAGGCAGT
CACGTACAAGGAAACACTCAATTAGCCAACGGCAGTAGGTAATCTGGCGCATGGC-------------------------
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----------TTAACAACCAGATCGGACGTCCATCTCGCTTCCTATCCAACGGCATAGGACTAGTCTCATGGATGCATGC
CTAGTAGTTGCCCTTATTATTATTTTCTTCCTAATAGAAACCAAAGAGATAATAACTCAAAAAAGAGAAGCAGAACCGTG
ACGAATAAGAGAGAGGAATATATCATGATCAATGCATAGATAGTCTTCTTAAGAAATTAAGATTGGTTTTCGGAAAA-AA
TATATTAAGATTGG-ACCCGGAACACCCGCAAGAAAAGGAAGAA-GATTGGACCCGGATGCTAGCTAAGAATATTTAGAT
AACAAATTGTCCATTCACTATATTTGGCGTGTAAATCAAT------TAACAATGATGCACAAGATAAGCCGTGTATAGTA
TACTAATTTTCG--CAAATAATGCATTTAATCACGGGATTACTAGCCC---TAT---TCCA---TTTTACCATACTTAAT
GCATTAGATATTTTATAC---TCCGTGATCTCCACCGATC------GGTCTCTATAAAAACGCAACGAAGGGTGAGC--A
TGTGGCCAATGCATCAAGATTTTTGGGTC------CTCATGGCAGTCTTTACGAAGAACAGCGTTGTTGCCGTGTGCTTG
GGGGCTCTCATGCTCATGACCACCCTT---CTCTCCTCGGAAGGTTCAGAGCTTGGTACGTGCGT----TCTCTTAAATA
GCATCTAC----CAG-TTTTCACAAGACGTATATATCTTGCGATGTTGAGCAT--GATGAATGTATTTTTATGTGTGTG-
----------------------------------------------------------------TGTTTG-----TGTGT
GTGTGTGTGCAGTTGGATGTTTGGAGCCCCACCAGAACTGCTTCCCAGATGACTGCCAGAGGACATGCGCGGACAATATT
ATTGGAAAAAATGTGACAGGTTCCTGCGAACCGGAGCATGGCCCGCTAAAACCGTATCCCGCGCTAGTGTGTTGTTGCTA
TAGAGACGGTCTCCGATCATGATAAACAT-GGCGCTTAATTAGTCCACTTCGGGA--GTGAGACCATCAGTTCGATCCAC
CTGTTGTA------------TTGAATATCTTTGAGGAAAATGAGATTAGCAAAGTCGTGAGCCACGACAAAA----AGTA
--------------------------------------TATGTTATAATTATTGAGAGAAATAATAATATTGTTGTCTGC
GGTGCATTATATTCTTTTTTGGGAATGGCCAAAAGCTATATAGTAAATATCACGGACCCATACAAAAATATTCTTACATA
CATTGAAAATTAAATCTAAGTCCGTGGGAGTTCCGAAGTCTTGTTTCATCAACATCCATAGGCGGCGTGCCATGAGCAAA
GCTCATTGCGACCTCTCGGCCTTGGTATCAGCCGCACAAACTTGTTGAAATCTAGGTGTTTGTATAAGCAGTGGCTGGGA
AGTCGCCGACGTAGATTAGAAGACGCAGACGGGAGTGATCTAAGTAGCAAATCACCACCTTGCAGAACAAAACGTCATAG
AAGACCTGCAAAAT----GCCGACCAAACAGACATATGGGGGAACACAAATCTCACAAGCTCCCAGACGAGGTTTAGGTT
GGCCAACCTTCGTCGCTCAGAACTGAATCCGAAGGATCAAGATGCATGCTTACGTTGTTTGCTGCACAAGATAGCACGAC
AAAGACAAACCCGTAGAAAAATAAACCAGACTGGAAAATAAAATCTTGTGACACACCATCTTCCTCATGTCTCTGAACGA
CACGAAGGAGCACAGTCGGAAACATGACGAGACGGGAAGACCTTATTCCATGTTATTGGCAACGTCTCGCCTCCATTGGC
CAATATCACCCAACCGAAGACCTGGGGCCCTCAACCCCACCTTTGTCGGAGCAACAGGCGGAGGGAAATGTAAACTTCAC
TCGTGCAGGGGAGTAGGTATCAGCCGTTGCCTATCACCAAGGTCACGGGAGTAGAAGGAAAGAATTGTAATGCACTAGAT
ATTAGATGAAGGGTCTGTCCTTGTATTGATATTAATTCACATA
>chrUn_2
-CAATTCTCCGTTTTGTTCGAAACACACATTTTGTGTGGAAACAAAATAAATGTTCTGTGCAGGACGGAAAAATAATTCC
CTGGATTAAAATTAGCCACAATCAGCAAAGTTTGGTTTATATGAAAGCAAAGTTTGCCTCATATGGGAAGCAAAATCATA
CGGGAAGCAAATGTTGCTTCATATGGAAACAAAATTGAAAAGTTTTTTAAACAGTTTTATGCTCAATATAAGGAAGCATA
AAACACAGCGGGGATCTCA-TTTTCTGGAGTTATTTGATTCT--------------------------------TTAGAT
CAGAAGTTGATTTCACAAAACTCTGGAAAAACGGAACCAGCGAACAAG---T---AACAAATCCCACGTAATTAGGCAGT
CACGTACAAGGAAACACTCAATTAGCCAACGGCAGTAGGTAATCTGGCGCATGGTTTAACAACCAGATCGGACGTCTCAT
GGTCATGGATCAATGCTATCAGTAGTAGATTGATGCCTAGTAGTTGCCCTAATTATTATTTTCTTCTTTTTTTTTGCGAG
AAAATTTCTGATCTATTCATCTTCAATCATGGCAGTACAACGAATACCAGAATAATAAAAACTACATCCAGATCCATAGA
CCACCTAGCGACAACTACCAGCACTGAAGCGAGCCGAAGGCGCACCGCCGTCATCGCCCCTCCATCGCCGGAGTCAGGCA
CAACTTGTTGTGGTAGACAGTCGGGAAGTCGTCGTGCTAAGGCCCCGTAGGACCAGCGCACCAAAACAACAACCGCCGCA
GATGAAGAATATACGTAGACCAGAAAGATCCAATCCGAAGACACGCGAACATAGACGAACAACGACGAGATCCGAGCAAA
TCCACCAAAGATAGATCCGCCGGAGACACAATAACTCAAAAAAGAGAAGAAGAACCGTGACGAATAAGAGAGAGGAAAAT
ATCATGATCAT---------------------------------------------------------------------
--------------------------------------------------------------------------------
-----------------------------CAATGCATAGATAGTCTTCTTAAGAAATTAAGATTGGTTTTCGGAAAATAA
TAATTTAAGATTGG-ACCAGGGTCTCCCGCAAAAAAAGGAAAGACGATTGGACCCGGATGCTAGCTTAGAATATTTAGAT
AACAAATTGTGCTTTCACTATATTTGGCATGTAAATCAAT------TAACAATGATGCACC-------------------
-----------------------------------AGATTACTAGCCC---TAT---TCTATTTTTTTACCATAATTAAT
GCAATAGAGATTTTATAC---TCCGTGACCTCCACCGATC------GGTCTCTATATAAACGCAACGAAGGGTGAGC--A
--TGGCCACTGCATCAAGATTTTTGGGTC------CTCATGGCAGTCTTTAGGAAGAACAGCGTTGTTGCCGTGTGCGTG
GGGGCTCTCATGCTCATGACCACCCTT---CTCTCCTCGGAAGGTTCAGAGTTTGGTACGTACGT----TCTCTTAACCA
GCATCTAC-TATCAG-TTTTCACAAGATGTATATATCTTGCGATGTTGAGCATATGATGAATGTA-TTTTTACATTTCTG
CACTGA-------------------------TAATTGGAATAGCAAA-TGACGGTTTTGCTTG-----TG-----TGTGT
GTGCGTGTGCAGTTGGATGTATGGAGCCCCACCAGAACTGCTTCCCAGATGACTGCCAGAAGACATGCGCGGACAATATT
ATTGGAAAACATGTGAAAGGTTCCTGCGAACCGGAGCATGGCCCGCTGAAACCGTATCCCGCGCTTGTGTGTTGCTGCTA
TAGAGACGGTCTCCGATCATGATAAACAT-GGCGCTTAATTAGTCCACCACGGGA--GTGAGGCCATCTGTTCGATCCAC
CTGTTGTATAGAATTAATAATTGAATATCTTTGAGGAAAATCAGATTAGCAAAGTCGTGAGCCACCACAAAA----AGTA
CAACCTACCCGATATGATATATGATAATTATAATTCTCTATGTTATAGTTATTGAGAGAAATAATAATATTGTTGTCTGC
GGTGCATTATATTCTTTTTTGGGAATGGCCAAAAGCTATATAGTAAATATCACGGACCCATACGAAAACATTCTTACATA
AATTGAAAATTAAATCTAAGTCTGTGGGAGTTCCGAAGTCTTGTTTCATCAACATCCATATGGGGCGTGCCATGAGCTAA
GCTCATTGCTACCTCTCGGCCTTGGTCTCAGCGGCACAAACTTGCTGAAATCTAGGTGTTTGTATAAGCAGTGGCTGGGA
AGTCGTCGACGTAGATTAGAAGACGTGGACGGGAGTGATCTGAGTAGCAAATCACCACCTTGCAGAACAAAACGTCATAG
AGGACCTGCAAAAT----GCCGACCAAACAGACATATGGGGGAACACAAATCTTACAAGCTC------GAGGTTTGGGTT
GGCCAACCTTCATCGCTCAGAAGTGAATCCGAAGGATCAAGATGCATGCTTACGTTGTTTGCTGCACAAGATAGCACGAC
AAAGACAAACCCGTAGAAAAATAAACTAGATTGGAAAATTAA--------------------------------------
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-------------------------------------------
>chr1A_2
-CAATTCTCCG-TTTGTTCGAAGCACATATTTTGTTTGGAAACAAAATAAATGTTCTGTGCAGGACGCAAAAATAATTCC
CAGGATTAAAATTACCAAAAATCAGCAATGTTTGGTTTATATGGAAACAAAATTTGCCTCATATGGGAAGCAACATCATA
CGGGATGCAAATGTTGCTTCATATGGAAACAAAACTGAAAAGTTTTTGAAACAGTTTTATGCTCAATATAAGGAAGCATA
AAACACAGCGGGGATCTCTTTTTTCTAGAGTTATTTGATTTTTTTTAAGCGCTAGAGTTATTTGATTCCTTAGATTAGAT
CAGAAGTTGATTTCACAAAACTCTGGAAAAACGGAACCAGCGAACAAG---TAATAACAAATCCCACGTAATTAGGCAGT
CACGTACAAGGAAACACTCAATTAGCCAACGGCAGTAGGTAATCTGGCGCATGGC-------------------------
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----------T---------------------------------------------------------------------
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-----------------------------CAATGCATAGATAGTCTTCTTAAGAAATTAAGATTGGTTTTCG---AA-AA
AAAGTTAAGATTGGAACCGGGAACACCCGCAAAATAAGGAAGAA-GATTGGACCGAGATGCTAGCTAAGAATATTTAGAT
AACAAATTGTAGATTCACCATATTTGGCGTGTAAATCAAT------TAACAATGATGCACCAGATAAGCCG--TATAGTA
TACTAATTTTCG--CAAATAATGCATTTAATCACGAGATTACTAGCCC---TAT---TCCAA--TTTTACCATAATTAAT
GCGTTAGATATTTTATACTACTCCGTGATCTCCACCGATC------GGTCTCTATATAAACGCAACGAAGGGTGAAC--A
--TGGCCAACGCATCAAGATTTTTGGGTC------CTCATGGCAGTCTTTACGAAGAACAGCGTTGTTGCCGTGTGCTTG
GGGGCTCTCATGCTCATGACCACCCTT---CTCTCCTCGGAAGGTTCAGAGCTTGGTACGTACGT----TCTCTTAACTA
GCATCTAC----CAG-TTTTCACGAGATCTATATACCTTGCGATGTTGAGCAT--GATGAATGTTTTTTTTATATTTCTG
CACACG-TAGTTATCCAACATGTGAATTAATTAATTGGAATAACAAA-TGATGTTCTACGGTTTTGTTTG-----TGCGT
GTGTGTGTGCAGTTGGATGTTTGGAGCCCCACCAGAACTGCTTCCCAGATGACTGCCAGAAGACATGCGTGGACAATATT
CTTGGAAAACATGTGACAGGTTCCTGCGAACCGGAGCATGGCCCGCTAAAACCGTATCCGGCGCTTGTGTGTTGTTGCTA
TAGAGATGGTTTTCAAAAATGATAAACAT-GGCGCTGATGATAGGGTGCATCCATAAATAAGACCAACAGCTCGATCCAC
CTGTTGTA-----------AATGAATTTCTTTGAGTAAAGTCAGATTAACAAAGTTGTGACCTACGTCAAAA----AGTA
--------------------------------------TATGTTATATTTATT---------------------------
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>chr1D_753
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----------------------------------------------------------------------------AGAT
AACAAATTGTACATTCACCATATTTGGCGTGTAAATCAAA---TAGTAAAATTGATGCACCAGATAAGCCC-------TA
TACTAATTTACGCCCAATTAATGCATTTAATACGAGATAATTCCCACTA--TAT---TCTAA--TTGTACGATAATTAAT
GCATTAACTATTTGGTAC---TCCGTGATCTCCGCCTATTTGGG------TCTATATAAACGCAACGAAGGGTGAGC--A
--CGCCCACTTCATCAAGTTTTTTGGGTCCTCATGGTCATGGCAGTCTTTACGAAGAACAGGGTTGTTGCCGTGTGCTTG
GGGGCTCTCATGCTCATGGCGACCCTTGATCTCTCCTCGGCAGGTTCAGTCTATGGTACGTACGTACGTTCTCTTAATTA
CTAGCGTCTTGTCAGTTTTTCACAAGATGTATATATCTTACGATGTTGAGCAT--GATGGA---------TATATTTTTG
TACACG-TAATTATCCAACAC--GAATTAATTAGTTGGAGTAACAAAATGATGTTCTATGTTTTTTGTTTGCCTCTGTGT
GTGCGCGCGCAGTTGGATGTTTCGAGCCACACCAGAACTGCTTCCCAGATGAGTGTCAGAAGACATGCGTGGACAATGTT
CCTGGAAACAATCTGAAAGGTTCCTGCGAGCCGGACCATGGCCCACTAAAACCGTATCCCGCGGTTCAGTGTTGTTGCTA
TAGAGACC--CTCCGGTCATGAGTAACATGGGCGCTTAATTAGTCGACGACGGGG--ATAAGACCATCAGTTCGATCCAC
CTGTTGTACACAACTAATAGATCAATATCTTTGAGGAAAGTCAGATTAACAAAGTCATGAGCTAAGTCAAATAAGTAGTA
--------------------------------------TATGTTATGATTATTGAGAGAAATAATAATATTGTTGTCTGC
GGTGCATTATATTGTTTTT-------------------------------------------------------------
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>chr1B_753
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----------------------------------------------------------------------------AGAT
AACAAATTGTACATTCACCATATTTGGCGTGTAAATCAAATAGTAGTAAAATTGATGCACCAGATAAGGCC-------TA
TACTAATTTACGCACAATTAATGCATTTAATACGAGATAATTCCCACCA--TTCTTATCTAA--TTGTACGATAATTAAT
GCATTAACTATTTGGTAC---TCCGTGATCTCCGCCTAGCTATTTGGGTCTATATATAAACGCAACGAAGGGTGAGC--A
--TGCCCACTGCATCAAGATTTTTGGGTC------GTCATGGCAGTCTTTACCAAGAACAGCGTTGTTGCCGTGTGCTTG
GGGGCTCTCATGCTCATGGCGACCCTTCATCTCTCCTCGGCAGGTTCAGTCTATGGTACGTACGTACGTTCTCTTAATAA
CTAGCGTC-TGTCAGTTTTTCACAAGATGTATATAT---------------------------------------TTTTG
TACACG-TAATTATCCAACAC--GAATTAATTAGTTGGAGTATTTTT-------------------TTTG-----TTTGC
CTCTGTGTGCAGTTGGATGTTTCGAGCCACACCAGAACTGCTTCCCAGATGAGTGTCAGAAGACATGCGCGGACAATGTT
CCTGGAAAGAATCTGAAAGGTTCCTGTGAGCCGGACCATGGCCCACTAAAACCGTATCCCGCGATTCAGTGTTGTTGCTA
TAGAGACC--CTCCGGTCATGAGTAACATGGGCGCTTAATTAGTCGAC----------------------------CCAC
CTGTTGTACACAACTAATAAATCAATATCTTTGAGGAAAATCAGATTAACAAAGTCGTGAGCTAAGTCAAATA----GTA
--------------------------------------TATGTCATAATTATTGAGAGAAAAAATAATATTGTTGTCTGC
GGTGCATTATATT-------------------------------------------------------------------
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>chr1A_829
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------------------------------------------------------------------------------TA
TACTAATTTACGCCCAATTAATGCATTTAATACGAGATAATTCCCACCACGTAT---TCTAA--TTGTACGATAATTAAT
GCATTAACTATTTGGTAC---TCCGTGATCTCCGCCTATTTGGG------TCTATATAAACGCAACGAAGGGTGAGCTAA
--TTCCCACTGCATCAAGTTTTTTTGGTCCTCATGATCATGGCAGTCTTTACGAAGAACAGGGTTGTTGCCGTGTGCTTG
GGGGCTCTCATGCTCATGGCGACCCTTGATCTCTCCTCGGCAGGTTCAGTCTATGGTACGTAAGTACGTTCTCTTAATAA
CTAGCGTC-TGTCAGTTTTTCACAAGATGTATATATCTTACGATGTTGAGCAT--GATGGA---------TATATTTTTG
TACACGGTAATTATCCAACAC--GGATTAATTAGTTGGAGTAACAAAATGATGCTCTATGTTC-----------------
-------CGCAGTTGGATGTTTCGAGCCACACCAGAACTGCTTCCCAGATGAGTGCCAGAAGACATGCGAGGACAATGTT
CCTGGAAACAATCTGAAAGGTTCCTGCGAGCCGGACCATGGCCCACTAAAACCGTATCCCGCGATTCAGTGTTGTTGCTA
TAGAGACC--CTCCGGTCATGAGTAACATGGGCGCTTAATTGGTCGACGACGGGG--ATAAGACTATCAGTTCGATCCAC
CTGTTGTACACAACTAATAAATCAATATCTTTGAGGAAAGTCAGATTAACAAAGTCGTGAGCTAAGTCAAATAAGTAGTA
--------------------------------------TATGTTATAATTATTGAGAGAAATAATAATATTGTTGTCTGC
GGTGCATTATATTGTTTTTTGG----------------------------------------------------------
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>chr1A_1493
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---------------------------------------------------------------------AAA----AGTA
--------------------------------------TATGTTATAATTATTGAGAGAAATAATAATATTGTTGTCTGC
GGTGCATTGCATTCTTTTTTGGGAAAGGCCAAAAGCTATATAGTTAATATCACGGACCCATACAAAAAAATTCTTACATA
AATTGAAAATTAAATCTAAGTCCGTGGGAGTTCCGAAGTCTTGTTTCATCAACATCCATAGGCGGCATGCCATGAGCAAA
GCTCATTGTAACCTCTCGGCCTTGGTCTCAGCGGCACAAACTTCATAAACTAGGTCTCTCGGCCTTGGTCT---------
-------------------------------------------------------CACCTTGCAGAATAAAACGTCATAG
AGACGCATGCTTACGTTGGCCTACCAAACAGACATA---GGGAACACGAATCTCACAAGCTCCCAGACGAGGTTTAGGTT
GGCCTACCTTCGTCGCTCAAAACTGAATCTGACGGATCAAGATGCATGCTTACGTTGTTTGCTGCACAAGATAGCACGAC
AAAGACAAACCCGTAGAAACATAAACTAGGCTGGAAAATAAAGTCTTGTGACA---CATCTTCCTCATGTTTCTGAACGA
CACGAAGGAGCACAGTCGGAAACATGACGAGATGGGAAGACTTTATTCCATGTTGTTGGCAACATCTCGCCTCCATTGGC
CAATATCACCCAACCGAAGACCTGGGGCCCTCAACCCCACCTTTGTCGGAGCAACAGGCGGAGGGAGATGTAGACTTTAG
TCGTGCAGGGGAGTAGGTATCAGCCGTTGCCTATCACCAAGGTC------------------------------------
-------------------------------------------
>SNPs
S-------------------------------------------------------------------------------
-------------------------S------------------------------------------------------
-----------S-------------------------------------------S------------------------
-----------------------------S--------S------------------------------S----------
----------------------S-----------------------S-SSS-----------------------------
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-----------SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSS---------------------------------------------------
--SS--------------S-------------S-----------------------------------------------
----------S-------------------------------------------------S----------SS-------
--------------------------------------------------------------------------S-----
--------------------------------------------------------S-----------------------
SS------------------------------------------------------------------------------
-------------------------------------------------------------S---------------S--
---------------------------S------------------------------------------SSSSS-S-S-
--------------------------------------------------------------------------------
------------------------------------------------------------S-------------------
-----------------------------------------------------------------S--------------
------------------------------------------------SS------------------------------
-----------------------------------------S--------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------S-----------
S-------------------------------------------------------------------------------
---------S----------------S-----S-----------S-----------------------------------
-----S-------------------SS--------------S--------------------------------------
-S------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------S---------------S----------SSS--------------S---------
--------------------------------S--------S------------S--------S----------------
------------------------------------------------------------------S-----S----S-S
--------------------------------------------SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
>forward_992
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------------AACAACCAGATCGGACGTCC------------------------------------------------
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>reverse_2050
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-------------------------------------------------TCGGGAGTGAGACCATCAGT-----------
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