>input_sequence_78210
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--------------------ATGATGTACCATGAAGGGACCACCAACAAGCTCAGCACGCCAGAGCTAGCATTTGCCCAC
ATCGTCAACTCTGTGGAGGCCACGATCAGTGTGGAAGTCGTTTATGGGGATTGGCCGCGTGGCTTTCGAGGAGTTTTCAC
CGCCAACACCGCCAGCATGGATCACATGAAAGTCACGTTGCTTGCATTTGAAG-----------------ACGGTAAATT
ACTACCAATGGACGGCCATAGCAATGTGGTCAAGCTTTCACGCCGCGTTGTCTGCGTCGAACTCCGTCGGCCAAAGATGG
CCAAGGTGAAGAAGCCAAAGCTCAAG-------------ATTTCAGCGCAAGCTATGCGTATCAACAGGGAAAATGATGT
ATGGAGAAATGCTGTAGCTTTTACACCCGAGAAAGCAGGTAGAAGCCTGGGGACACTTAAAGTTGGCTCCTGTGAGATGC
AGGTGACCGTGGCATGGTCCCTTCTCTCCACCTTCAAATTTAGCTACGATAGACGATTACTAGAAGAGTAA---------
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>chr7D_1_TraesCS7D01G439000
AGGCTTGCTTTTTGACGACGATATCAGCGCGGCCACGGCAACGAGGAAGAAG--GCCGGCGGAGAGGTGTGGCGAGGAGG
CGCACACGGCAAACTTGGCTCGCCGGCCAAAAGATATGGAGACGGAGCCCGAGGAGTCGCGCACAGACGTGAACGCCCAC
GAAGCACGTCTCTACCGTGTTTTCTGGAACGACATGTTTGCCAAAAAATGCGGCTCTTACGGGGACACGAGTAAGCCAGC
ATGCATGCAGCCTTGAATCGTTTCGCGGGTCAATCCATGCACACCGCCCTTAACTGCACACAACCCTTAATTTCTATTTT
TACTAGTATTCTCTTTGTTTTTTTACTCCACATATAAGATTTGTTTTAATCAAATTTCACAAAGTCTGATTATGTTTGTA
GGAAAAAAATATCTACATTCAGAGTATCAAACCCGTATCAAACCAATAACTTTAATATTGTAGATGCTGATATTTTCAAT
ATATATTTGATCAAACTTTATAAATTTTGACTTTAGACAGATCTCTGCCGCAATTTTAATCATTCTATTCTATCGCTGAC
TTCGTTACGTGCACTGTGATCGTGGTTTGCAGCGTCTATCCCTCCCATGTGTTTCACCGACGGTAGCCACATGGACGTCT
ACGGCATAGTCGTGGCCCGCGAC---------------------------------------------------------
-ATG-----------------------GTGGATCACAACCGTAATATCATCTTCCATCGCGAAAGAGACAACTGCCAAAG
AATCACCAAGCAGGTTTGTACACACAATCCCTGGCCGCCTACTTCGTTCCGCGACGATACTAT----TTGGCCAGCTTAA
TCATGAGCTAACCTTATATA-------AATGTCATGTGCATGCATACAGGATCCG--------TATCTTGCACTAACAGG
CCCCACTCGAGCTGTTTTGCTATCTGTCGATCCAACGTA----CGTCGAGGTTGATCTGAAGGTGAAAGGTGTCGTCCAA
TCC-----GAGGACAAAGATTTAAGCTCTCTAGCGCTCTGTTACAGAAACCAGGGTGCATCTAAATCA------------
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-----------------TACATGATGTACCATGAAGGGACCACCAACAAGCTCAGCACGCCAGAGCTAGCATTTGCCCAC
ATCGTCAACTCTGTGGAGGCCACGATCAGTGTGGAAGTCGTTTATGGGGATTGGCCGCGTGGCTTTCGAGGAGTTTTCAC
CGCCAACACCGCCAGCATGGATCACATGAAAGTCACGTTGCTTGCATTTGAAG-----------------ACGGTAAATT
ACTACCAATGGACGGCCATAGCAATGTGGTCAAGCTTTCACGCCGCGTTGTCTGCGTCGAACTCCGTCGGCCAAAGATGG
CCAAGGTGAAGAAGCCAAAGCTCAAG-------------ATTTCAGCGCAAGCTATGCGTATCAACAGGGAAAATGATGT
ATGGAGAAATGCTGTAGCTTTTACACCCGAGAAAGCAGGTAGAAGCCTGGGGACACTTAAAGTTGGCTCCTGTGAGATGC
AGGTGACCGTGGCATGGTCCCTTCTCTCCACCTTCAAATTTAGCTACGATAGACGATTACTAGAAGAGTAAGGTGAGATT
TGCCGTGCCATGATATTGGAGTTTAACGTGAACTACACATCAGCGCATACAAAGAGCTAGGTTACATGCATGTAATAATG
TTAGACTCGTGCGTG----------------------------------CATAGGATCAGTTGTTTGTCTGTTCTTTACG
TGTGTACCTAT-----------------------------------------------TTCACGTCATTGAGGAGGAATA
CAATGACAATGCATTTTGATCCCTAGTTTACATTCCAACATGGTATCAGATTCTTAATCCTAGTCCTATGCTTCCGCCAT
GTCCACCGAGTCCGCAGCTGGTGTCGCAAGCCTGCCCGCGAGCACCTCTCCCTCTTCTCTGTTGGCCTCCTCCGCTCTTC
TGGTCTCTTCCTCTTCACCGGCCTCCTTGCCAATCACCAATAGCCAGCTTCTTCCTCTGCAGATTGCGTCCCCAGCTTCC
TTTCTTGCGTTCCACGACATGCGCGTGGAGAATGTCAATTTTCACCACCATGTGCGTCTCTCGCTTGACATGAAGGGCAC
AAAACTACTGTACGGCGCAGTCTCATGGAGAAGACAATTGACTANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTAACGGTTGTCTTCTGGAGCCATGTTGACTA
TCTAGATAAGACCTCACACACAAATATAAGGCTATGACAGTAAAAGCTCATACCCATACCTATTAAAATCCTAGTGTTTT
CAGCCTTAAAGGTTGTTAAAGGTCCAGTTAAAAAACTGAAATTTCAGTTGCCACCAAACA-CTTCTTTGGGAAAAGGCAT
GAGAACCTTATCATAGTGCACATCCTCTCGTGAATTCGATAACTCAGGATCACTCCTTGGGAAAAAGGCACGAGAACCTG
ATGTTATCTAAACCAGATCTCAAAAGGCGTCCG
>chr6D_2
-GGCTTGCTTTTTGACGACGATATCAGCGCGGCCACGACGACCAAGGCTGAGGCGCCGGCGGAGAAGTGTGGCGAGGAGG
CGCAGACGGCATACTTGGCTCGCCGGCAAAAAGAGATGGAGACGGAACCTTAGGAGTCGCGCACCGACGTGAACGCCCAC
AAAACTCGTCTCTATCGTGCTTTCTGGAACGACATGTTCGCCAAGAAATGCGGCTCCTACCAGGACACGAGTAAGCCAGC
ATGA----AGCCTTGGATCCTTTCACGCCTCTCCTAATTGCTACCTTTACGG----------------------------
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-----------------------------------------------------TTTTAATCATTCTTTTCTGTCGCTGAC
TTTGTTACGTGCACTGTGATCGTTGTTTGCAGCGTCTATCACTCCCATGTGTTTCACCGACGGTAGCCACGACGCCTTCG
TCCATGAGCAGGATACTCTGCAGATCTTTTCGATCAAAGTCGAGGTGATAATAGGGGGCCTACAGTGGCCACTCGACGTG
TACGGCATGGTCGCCGCCCGCGACATAGTGGACCACAACCGTAATATCATCTTCCATCGCGAAAGAGACAACTGCCAAAG
AATCACCAAGCAGGTTTGTGCACATCCCCCGTGGCCGCCTACTTCCTTCTGCGACAATACTAT----TTGGCCTGCTTAT
TTGTCGGCTAACCTTATATA-------TATGTGATGTGCATGCATATAGGGTCCG--------TATCTTGCACTAACAGG
CCCCACTCGAGCTGTTTTGCTATCTGTCGATCCAACCTA----TGTTGAGGTTGATCTGAAGGTGAAAGGTGTCGTCCAA
TCC-----GAGGCCAAATATTTAAGCTCTCTAGCGCTCTGTTAAAGAAACCAGGGTGCATCTAAATCATCATTTTGTGGT
CAGTTGATTTTCTTTTTGTTGGATGTGCTTTGAAATGTGTGGTGTTTTCATTTTCTTCTCTTTAATTCTGTTGTTGGGTT
GGGCTGTGTGAAATCGATTGACCCCTGTTTTGGGTCAGTCGAATTGCTTCTTGGGATCGTTTTTGTTCTTCTGGGTTGTG
TTTTTCTTTTTTCTTGTTGTTAGTTTTTTATTTTTGTTGGTTTTCGGCTGAGTTTCATTATATACATACAAACACTATAT
AATATGCGACCAAATTTCATGATTATATGATTATTTTTGCATATTATGATAAAGTGCAACTTCGGTGCAAAGTTGTTCCC
CAGTTTTTTTTTTAATTTTCTCTCTTCTTAAAGGAAATAGAACACCACTAATTCATCCAATTTCAGAAAAAAAATATTAT
TTTGATATTTTTTGTCTTTACTTCATTTCATTCTACTTTAAGGTTAAAACAAATGATTCATTTGTTCTTAGATTTTGTTT
TTGCAAAAGTTCCACTTTTGTATGCTTATTATTGCATATTATTTAAAAGCGCAATTTTTATGTATATTTCGTGCAAATTT
TGTCAGAGTTTATTATAGATTCTTTTTCCCATTTTCTTTGTTCTTAAATGGTAATACCAGTGCAACATGTTCATTCTTTC
TTTTGTGGGTATTTTTGCTTTATTTTTTATTCTAGTTTTATTTTCTTTTTTGATGATTTTTCTTTTTTCTTTATGTGTTT
TTTGGATGTTGAGTGTGTGTAAATATATGCACACAAGTACTACATGTATACATTATATTAGTGTCTGGAAATTTCACCAT
TGTATGTTTCTTCCTACATATTATAAAAAGTACAATTTTTGTACTAATCTTGACGAAATTTTAGTTTTAAGTTTTTATTT
CACTTCTCTCTTATTTGAGGGTAATACCAATATATGCCACTAATTCATTTCTTATTTGAAACTTATTTTTTATGTAAATT
CTACTAGTATATGTTAGTTCTTGCATAGCTATAAAGAGTGCAACTTATGTGTAAATTATGTGCAAATTTGATCATGATTT
AGTTTTTCGTTGCTTTCTTCTTAAAGGGTGGTACTAATGCACTACTTCATTATTTTTTAGAAAATATTATACTTTTTGTG
TTTAAATAACTATACACGCAAGTACTATACAACATGTGTGTAAATTGTAGTAGAGTGCGAAATTGCAATATTATATGTTC
GTTGCTTGCATATTACTAAAAGTGCAATTTCAGGCAAACTTGTGTGCAAAATTTTCCTCTTTTCCTTTTTTTTTTCTTAA
AGGGGTTCATTATTCCCTAGAAACCTTTACTATTTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTTCTTTCTTCTCA
AAGGGTTTCATTCTTACATAGAAAACTTCATTATTTTGATTTTGTTTTTTTTATTTTATTACATTTTCTTTCTTTAGAGG
CAATACCGATATCGTTTCACTATTTTATGTTTTTTTGGTTGCGTATAACACATCGTAAAAATGATATATGTGCATGCATG
TATTGTATCCACTAACAATTGCGTTGCATATAACACATCGTGTTGTTGTTCGGATAATGGTTGTGACGGGTGTTTTGCTT
GTGATTAATATGTGCTAATGGCCGGTGCTTAACTAGATTAGCCGGTTGGGTGTGCATGCATGTGTCCCACCCAGGGGATC
GATCTCTGGGCAGCAAATCGACTGAAATAAAATTTGGTTAGTCGATTGACACAAATTTTATTTCACTTGACTGATCTATA
GTCTGTCCCCTAAATCATACATGATGTACCATGAAGGGGCCACCAGCAAGCTCAGCACGCTAGAGCTGGCATTCGCCCAC
ATCGTCAACTCTGTGGAGGAAACGATCAGCGTGGAAGTCCTTCATGGGGATTGGCCACGTGGCTTTCGTGGAGTTTTCAC
CGCCAACACCACTAGCATGGATCACATGAAAGTCACGTTGCTTGCATTTGAAG-----------------ACGGAAAATT
ACTACCGATGGACGGCCATAGCAATGTGCTCAAGCTTTTACGCCGCGTTGTCTGCGTCGAACTCCGTCGGACCAAGATGG
CAAAGATTAAGAAGCCAAAGCTCAAGATTTCAGCTCAAGATTTCAGCGCAAGCTATGCGTATCAACAGGGAAAATGATG-
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>chr6D_201
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------------------------------------------AAGAAATGCGGCTCCTACGAGGACACGAGTAAGCCAGC
ATGCATGCAGCCTTGGATCGTTTCATGCCTCTCCTTATTACTACCATAACCTTTTTTTTTAATCCCTTAATTTCTTCTAC
CTTTACTGCTTTACTGGTTCT-----------------------------------------------------------
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-----------------------------------------TCTGTGCCGCAATTTTAATCAATCTCTCCAATCGCTGAC
TACGTTACGTGCATTGTGATCGTCGTTTGCAGCGTCTATCCCTCCCATGTGTTTCACCGACGGTAGCCACCATGACTTTG
TCCACGAGCAGGATACTCTGCAGATCTTTTCGATCAAAGTCGAGGCAATAGCAGGGGGCCTACAGTGGCCACTCGACGTG
TATG-----------------------GTGGATCACAAGCGTAATATCATCTTCCATCGCGAAAGAGACAACTGCCAAAG
AATCACGAAGCAGGTTTGTACGCACATTCCCTGGCCGCCTACTTTGTTCTGCGACGATACTATATATTTGGCCTGCTTAA
TCGCGAGCTAACCTTATATAGTACGTATATGTCATGCGCATGCATGCATGCAGGAACCATATATATCTTGCACTAACAGG
CCCCACTCGAGCTGTTTTGCTATCTGTCGATCCTACATACGTCCGTCGAGGTTGATCTCAAGGTGAAAGGTGTCGTCCAA
CCCAACCCGAGGACAAAGCTTTAAGCTCTCTAGCGCTCTGTTACAGAAACCAGGGTGCATCTAAATCA------------
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-----------------TACATGATGTACCATCAAGTAACTCTGTGGA----------GCTAGAGCTAGCATTCGCCCAC
ATCGTCAACTCTGTGGAGGCCACGATCAGTGTGGAAGTCGTTCATGGGGATTGGCCACGCGGATTTCGAGGAGTTTTCAC
CGCCAACACCGCCAGCATAGATCACATGAAAGTCACGTTGCTTGCGTTTGAAG-----------------A---------
--------TGGACGGTCGTAGCAATGTGGTCAAGCTTTCGCGCCGTGTCGTCTGTGTCCAACTCCGTCGGTCCAAGATGG
CAAAGGTTAAGAAGCCAAAGCTCAAG-------------ATTTCAGCACAAGCTATGCGTATCAACAGGGAAAATGATGT
GTGGAGACATGCCGTAGCTTTTACACCCCAGAAAGCAGGTACAAGTCGGGGGACGCTTAAGGTTGGCTCCTGTGAGATGC
AGGTGACCGTGGCATGGTCCCTTCTCTTCACCTTCAAATTTAGCTACGATAGACGAGGACTAGAAGAGTAAGGTGAGATT
TGACGTGCCATGATATTGGAGTCTAACGTGAACTACACAGCAGCGCATACAAATAGCTAGGTTACATGCATGTAATACTG
TTAGA---------------------------------------------------------------------------
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>chr6B_1155
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--------------GCATCGATCACATGAAAGTCATGTTGCTTGTGTTTGAAGACGGGAAATTACTACCAA---------
--------TGGACGGTCATAGCAATGTGGTCAAGCTTTCACGCCGCGTTGTCTGCGTCGAACTCCGTCGACCGAAGATGG
CAAAGATGAAGAAGCCAAAGCTCAAG-------------ATTTCAGCGCAAGCAATGCGTGTCAACAGGGAAAGTGATGT
GTGGAGACATGCCCTAGCTTTTACACCCCAGAAAGCAGGTAGACGTCTGGGGACGCTTAAGGTTGGCTCATGTGAGATGC
AGGTGACCGTGGCATGGTCCCTTCTCTCCACCTTCAAATTTAGCTACGATAGTCGATTACTAGAAGAGTAAGGTGAGATT
TGCCG-GCCATGATATTGGGGTTTAACGTGAACTACACAGCAGCGCATACAAAGAGCTAGGTTACATACATGTAATAATG
TTAGACTCCTGCGTGCATGCACATGCATGTCGCCGTACCACTCACGAGACATAGGATCAGTTGTTTGTGTGTTATGTACG
TTTGCGTGCGTGCGTGTGTTCCTCTTTCTGTCAAGTGTACTGTCGATCTCTCTCCTGATTCACGTCTTTGAGGAGGAATA
CAATGACAATGCATTTTGATCCCTAGTTTACATTCCAGCATGGTAACAGATTCTTAATCCAACTCCTATGCTTCCGCAAT
GTCCACCGAATCCGTGGCCGGCGAGGCAACCCAGCTGGAAAGCACCTCTCCTTCTTCTTTGTCGGCCTCCTCCGCTCCTC
TGGTCTCTTCCTCTCCACCGGCCTCCTTGCCAATCACCAACAGCCAGCTTCTTCGTATTCAGATTCTGCCCCCAGCTTCC
----TTGCATTCCACGCCGTGCGCGTGGAGAATGTCAATTTTCACCACCATGTGCGTCTCTTTCTTGACATGAAGGGCAC
AAAACTACTGTATGGCGCAGTCTCATGGAGAAGACAATTGACTACTTTGGACACATCCCCCACTATCGCATCGTAAGCAC
ATCA----------------------------------------------------------------------------
-------------------------------------------------TAACGGTTGTCTTCTAGAGCCATGTTGACTA
TCTAGATAAGACCCCGCACACAAATATAAGGCTATGAGAGTAAAACCTCATACCCTTACCTATTTAAATCCTAGTGTTTT
GACCCTTAAAGGTTGTTAAAGTTCTGGTTAAAAAACCGAAATTTAAGTTGCTAGCAAACA-TTT-TTGAGGAAAAGGCAC
GAGAACCTTATCATAATGCACATCCTCTCACGAATTCGATAACTCAGGATCACTCCTTGGGAAAAAGGCACGAGAACCTT
ATATCATCCAAACCATATCTCAAAAGGCGT---
>chr6D_1787
GC------------------------------------------------------------------------------
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---------------------------------------AAGCACCTCTCCTTCTTCTCCGTCAGCCTCCTACGCTCTTC
TGGTCTCTTCCTCTCCACCGGCCTCCTTGCCAATCACCAACAACCAGCTTCTTCCTCTTCAGATTGCGCCCCCTGGTTC-
---CTTGCGTTCCATGTCATGCGTGTGGAGAATGTCAATTTTCACCACCATGTGCGTCTCTCTCTTGACATGAAGTGCAC
AAACCTACTGTATGGCACAGTTTCATGGAGAAGACAATTGACAACTTTGGACACATCCCCTCCTATCACGTCATAAGCAC
ATCA----------------------------------------------------------------------------
-------------------------------------------------TAACGGTTGTCTTCTAGAGCCATGTTGACTA
TCTAGATAAGACTTCGCACACAAATATAAGGCTATGAGAGTAAAACCTCATACCCACACCTATTTAAATCCTAGTGTTTT
CACTTTTAAAGGTTGTTAAAGTTCCGGTTAAAAAACCGAAATTTAAGTTGCTAGCAAACACTTT-TTGGGGAAAAGGCAC
GAGAACCTTATCATAATGCACATCATGTCATGAATTCGATAACTCAGGATCACTCCTTGGGAAAAAGGCACGAGAACCTT
ATGCAATCCAAACCAGATCTCAAAAGGCGT---
>SNPs
S------------------------------------S-S--S-S-SSSS---------------S--------------
----S------S---------------S------S-----------S--SS-------------S---------------
S--S-S--------S----S------------------S-----S-----------S----S------------------
---------------S--------S--SS--SSSSS--SSSS---SSSSSSSSS-SSSSSS-S------------SS-SS
SSS--S-SS-S-SS-S---S-SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS---S---------------------S-------------
-----------------------S----------------------------------------------SSS---S--S
S-SS-SSSSSS-SSS-S-SSS-S---------------------------------------------------------
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--------------------------S----------------------S-----------------------S------
--S------------------------S----------------------S-----------------------------
------------------------------------S-------------------------------------------
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---------------------------------------------S--------------S------------S------
------------------------------------------S-------------S-----------------------
--------------------------------------------------------------------------S-----
------S-----------------------------------------------------------------S-------
-S------------------------------------------------------------------------------
S------S----S---------------S----------------S--------S-----S-------------------
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---------------------------------------S----------------------------------------
--------S-----------------------------------------------------------S----S-S----
-S--SSSSSS--------------------------------------------------------S-------------
-------------------------------------S-------S--------------S-S--------------S--
---------S----SS--S--S-SS----S--S--SS-SS-----------S----------S-----------------
--------------S-------------------------S-----------------S---------S-----------
SSS-------------S---------------------------------------------S-----------------
------------S-------------------------------SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS---------------S---------------
---------------S---------------------S-------S------------------S---------------
--S------------------S---S----------S-------S------S-S-------S--S--S-----------S
---------------S-------------S-------------------------------------------------S
----S---S---------------------SSS
>forward_279
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-------------------GTTTCGCGGGTCAATCCATG-----------------------------------------
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>reverse_3501
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------------------------------------------------------------AGTTGGCTCCTGTGAGATGC
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>forward_655
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---------------------------------------------------------------------------CGTCT
ACGGCATAGTCGTGG-----------------------------------------------------------------
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>reverse_4069
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--------------------------------------------------------------------TCCCCAGCTTCC
TTTCTTGC------------------------------------------------------------------------
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