>input_sequence_74655
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--------------------------------------------------------ATGGCATCCAAGGACCATGGAGGC
GGTGCTCCTCGGGAAGACGGATCTGACGAGGACTGCGGCTGCGGGTCCTGGACGATAGCTCTGCTCCTGTACACGTCCTT
CTGGCTGGTCA---TGGTGTACCTGCCGCCCATGGATTCCTTGCCCGGGATCCGGGAGCTCGACGGCTCGCCGCCATCCA
ACGACGACAAGCCCACCACGTGCTCCGTGGAGCTAGCCGGCGCCAGGGGGCTCGAGCCAGCGCTGG------------CT
CCGGGCGCGACCTCGCCGGCATTCGACCTCGTCGTGCACGTCGACAACGGCCGCGTCTATGAGCTGTGCCATGGCGGCGG
CGACGTCGTCGTCTCCTACGCGGGCGTACCCCTCGCGCGCGGGCGCACGCCGAGCTTCCGGCTGCCGGCAAAGACTACGG
GGCGGTGGGCGGTGAACGTGACGGGCGTGGGGCTGGGGATCCCGGCGGATTTGTCTCGCCTCATGACGGCGGAGCGGAGA
TGGGGGGTGGCCCAGCTGGAGATCGACATGGGCCTGGCCTGGCAGTCCTTCACGTGCGACGTTTTGGTTGACGGGCAACC
CGGCGCATCAGCGTGCAGGCTAGCTTAA----------------------------------------------------
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>chr3A_1_TraesCS3A01G250000
GTGTACCTAGCGTCGCCGAGGAGGTCGTGGGGG-CAGGTCGGCGCGACGGAGCTGGATCTCGTCGCGACGGGCTCTACCG
CCGACCGGGACCGGCGGGATGGGCATGCAGTCCACCAACAAGTGCCAGTTGTTAGGGAGGTGGATGTTGCTCCACGACAG
TGGCGTCCCCGTCTCCCAGTAGCGCTTCCAGGTGTTGGCCTTCACGTACGGGCGGTTTCGAGTGTTGGCCGCTGGCGGGG
CGATGAAGAAGGGTGGCGGAGGAGGAGGGGGTGGA--------GTGGCTGCGACGGCGGCCTAAGGAGGACCCAGCCTCA
TGGTCGTGCTTCTCCTTGCGGCCAGGGATCCAGTGCCACCCCATTGCCGATGGTAAGGACGGGGTGTAGGAGAGAGGGTA
GATCTACGACAACCGATGGCTAGGGTTTGCTCGTGTCGAGTATCGAGAAGGTAGGGATCGCCGGGAGTGGAAGCGTAGAC
TGGCCGGTCCACGGCTTCCACATTAAAAAGAATGATGCCCCACATGGTTAGGACTCTGACAAGCGGGGGCTGCCCGCACA
TACGCATTTTTTTTTGAACTGTGAGATTTAGGTGCCCAGCTGCCATATGTCCCCAAAACTGACAAGAAACGGGC-GCGTT
CCTGTCCGTTCGCTGTCTGTCTAAACATAAATCAGGAGCAAGTTTACTCCTGAAATGCAACGGGCAATCAGGAGCAAGTT
TGCTCCTGAAATGCAACGGGCCGAACGCGAAACAGATAAAATTTAGGGATGCGGACGAGTGTCTGTCCGTTTGGACCGTT
TGGCTCGTAACGGACACACGCGGACCAGATTAGGTACGATCGATGCGTTGTGCGTTGGAGTTAGCCTTAGACTCGAGCAC
GTAACGGAATAGCGCCCCACCTGGA---TC---CTCCTCGCAGGAAAAACAAAACGTGTACGTAACAGATTTCCTTTTGA
GCGAAAAAACTGAAGAGATACATAGAACGTGACGGTGGTACGCCGACGTGCTTCCGATGGCATCCAAGGACCATGGAGGC
GGTGCTCCTCGGGAAGACGGATCTGACGAGGACTGCGGCTGCGGGTCCTGGACGATAGCTCTGCTCCTGTACACGTCCTT
CTGGCTGGTCA---TGGTGTACCTGCCGCCCATGGATTCCTTGCCCGGGATCCGGGAGCTCGACGGCTCGCCGCCATCCA
ACGACGACAAGCCCACCACGTGCTCCGTGGAGCTAGCCGGCGCCAGGGGGCTCGAGCCAGCGCTGG------------CT
CCGGGCGCGACCTCGCCGGCATTCGACCTCGTCGTGCACGTCGACAACGGCCGCGTCTATGAGCTGTGCCATGGCGGCGG
CGACGTCGTCGTCTCCTACGCGGGCGTACCCCTCGCGCGCGGGCGCACGCCGAGCTTCCGGCTGCCGGCAAAGACTACGG
GGCGGTGGGCGGTGAACGTGACGGGCGTGGGGCTGGGGATCCCGGCGGATTTGTCTCGCCTCATGACGGCGGAGCGGAGA
TGGGGGGTGGCCCAGCTGGAGATCGACATGGGCCTGGCCTGGCAGTCCTTCACGTGCGACGTTTTGGTTGACGGGCAACC
CGGCGCATCAGCGTGCAGGCTAGCTTAACACGTTTTGTTTTGTCTCAGT------------------------CTCAGTA
GATTCATATGGAGCTACGTAAGAACACACAAGAATTACACAATAGATTCTCGTTTGAGTGCGAACCAAATTGTGATTTGA
TGGTTAGAGAGACTGTGGTATCACTAGCCCATCAAGGTTTAAGTCCTAGTGCTCGCATATTTCTAGAATTTTTTCAGAAT
TTTCGACGATGCGCATCCAGTGGGAGGAGACATTCTCGTCGATGACGAGATGCCTATGATGACTTCGTAAATTTTAAGAT
GATATGCTGACTCAGTCTTTCGAAGTGCTCATAGAGATAGGATTTGCGTGTGTACGTTCGTAGGGATGAGTGCATGCACG
TGTATATGAGCACTTGCGTCTATACTGTGTTAATTTTTTTTTCTCGTTTGAGTGTTTCAAATCGAGCTCGTCATGTC---
-TTTTTTCTACATTGTCTGTTTTGAGGTTATTTTTGTTTTTTTTGCGGAAAACACCCCAGCTCAAAAAATAAGGATAACC
GGTGATAAACAACACACACACCACATGTTGAAAATTACACCCAGGTCCCTGAGGAGCCAACCCAACACATCCACCGGCGC
GAGCCGCAAGCGCGTCGCCGCCGCCACTCTTACGTGGAGCCGGCGTGACCTTGTTATCTCGAGGCAGGAT--------AC
GGGAAGTCGACAACTTTGGTCCATACGAATCAAGACGCCAGAGAAGCATTGGATTGGAGAACTACCGGTTTGAAAGCATC
ACCTCTCTAGCCGGTGACGGGAGAGAAGAAAAATCTGGCGGGGAGATAACCACTCACGAGTATCTGCAGATGCAGCACCA
CTGGCGCAATGCTCCTCTAAAATCTCCAAGGCTCCGCAGCGGCACATGAGCACGCATCGCCGACTACTAGAGCACAAAAC
CAACCACAAGGGCGGTGCCGCCACGCT-GCCTCGATTGGGAAACCTTAGATCCACCAACGACTGCCGCACACCACATTTC
ACATGTTAATCACGAGATGACTTCT
>chr3D_1
GTGTGCATAGCGTTGTCGAGGAGGTCGTGGGGG-CAGGTCGGCGCGACGACGCTGGATCTCGTCGCAACGGGCTCTACCG
CCGACCGGGACCGGCGGGATGGGCACGCAGTCCGCCGACAAGTGCCAGTTGTTAGGGAGGTGGACGTCGCTCCACGACAG
CGGCGTCCCCATCTCCCAGTAGCGCTTGCAGATGTTGGCCTTCACGTATGGGCGGTTTCGGGTGTTGGCCGTTGGCGGGG
CGATGAAGAACGGTGGCGGAGGAGGAGG---TGGA--------GTGGCTGCGGCGGCGGCCGAAGGAGGACCTAGCCTCA
TGGTCGTGCTTCCCCTTGCGGCCAGGGATCCAGTGCCACCCCATTGCCGACGGTGAGGACGGGGTGAAGGAGA-GGGGTA
GATCTACGGCAACCGATGGCTAGGGTTTGCTCATGTCGGGTTTCGAGAAGGTAGAGGTCGCCGGGAGTGGAAGCGTAGAC
TGACCGGTCCACGGCTTCCACATTAAAAAGGATGAGCCCCGACGCGATTGGGAGTCTGACAGGCGGGGGCTACCCGCACA
TGCGCATTTTTTTTTGAGCGGTGGGATTTAGGTGCCCAGCTGCCATGTGTCCCAT-GGCGGACGAGAAGCGGGCGGCGTT
CATGTTTGTTCGCTGTCCTTCTGAACGCAAACCA------------------------------------AAAGCAAGTT
TGCTCCCGAAATGCAATGGGCCGAACGCGAAACAGATAAATTTTTTGGATGCGGCTGCGTGTCTGTCCGTTT--------
-GGCTCGCAACGGACACACGCGGACCAGATGAGGTACGATCAATGCGTTGTGCGTTGGAGTTAGCCTTAGACTCGAGCAC
GTAACGGAATAGCGGCCCACCTGGA---TC---CTCCTCTCAGGAAAAACAAAACGTGTACGTAACAGATTTCCTTTTGA
GCGGAAAAACAGAAGAGATACATAGAACGTGACGGTGGTACGCCGACGTGCTTCCGATGGCATCCAAGGACCATGGAGGC
GGCGCTCCTCGGGAAGACGGATCT---GACGACTGCGGCTGCGGGTCCTGGACGATAGCTCTGCTCCTGTACACGTCCTT
CTGGCTGGTCA---TGATGTACCTGCCGCCCATGGATTCCTTGCCCGGGATCCGGGAGCTCGACGGCTCGCCGCCATGCA
ACGACGACAAGCCGACCACGTGCTCCGTGGAGCTAGCCGGCGCCAGGGGGCTCGAGCCGGCGCTGG------------CT
CCGGGCGCGACCTCGCCGGCCTTCGGCCTCGTCGTGCACGTCGACAACGGCCACGTCTACGAGCTGTGCCATGGCGGCGG
CGACGTCGTCGTGTCCTACGCGGGCGTGCCCCTCGCGCGCGGGCGCACGCCCGGCTTCCGGCTGGCGGCCAAGAGCACGG
GGTGGTGGGCGGTGAACGTGACGGGCGCGGGGCTGGGGATCCCGGCGGATTTGTCTCGCCTCATGACTGCGGAGCGGAGA
TGGGAGGTGGCGCAGCTGGAGATCGACATGGGCCTGGCCTGGCAGTCCTTCACGTGCGACGTTTTGGTTGACGGGCAACC
CGGCGCATCACCGTGCAGGCTAGCATAACACGTTTTGTTTTGTGTCAGT-------------------------------
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>chr5D_2
-TGTACCTGGCGTTGTCGACGAGGTTGGGGAGGGCAGGAGGGCGAGGCGGCGCTGGATCTCCTCGCGATGGGCTTGGCCA
CCGAGCGGGACCGGCAGGATGGGCACGCGGTCCGCGGATAAGTGCCAATTGTTGGGGAGGTGGATGTCACTCCATAGAAA
TGGCGTCCCTGTCTCCCAGTAGCGCTCCCGGCAGCACGCCCC------------GTTGCGAGGGTTGGCCGTCGACGGGG
CGGTGAAGAACAACAAAGGAGGAGGAGGGGTTGGAGGGGTGGAGCGGCTGTGGCGA---CCGGAGGAGGACCCAGCCTCA
TGGTCGTGCTTCCTCTTGCACCCGTCAATCCAGTGCCACCCTATGGCCGATAGCGAGGATGAGGTGGAGGAGAGGGGGTG
GAGCTTCGGTGGCCGGTGACTAGGGTTTGGTCGTGACGGGTTTCGAGGAGGCATGCGTCGCCGGGAGTGTAAGTGTGGAC
TGGCCGGTCCGCGGCTTCCACATTAAATAGGACGACGCCCCA--------------------------------------
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>chr7A_64
----------------------------------------------------------------GCAACGGGATCGGCCA
CCGACCGAGACCGGCGGGACGGGCATGCGGTCCGCTGAC-AGTGCCAGCTGTTGGGGAGGTGGACGTCGCTCAACAGCAG
CAGCATCCACATCTCCTAGTGGCGCTTGCATATGCCTGCATTCACATACCGTCGGTTATGAGGGTTGGTCGGCGGCGGGA
CGATGGAGAAAGATGGATGAGGAAGAGGGGATGGAGGGGTGGGGTGGATGCAACGGCGGTCGGAGGAGGAACCAGCCTCA
TGGGTGCGCTTCCCCTTGTGGCTAGGGATCCAATGCCACCCTAATGTCGACGGTGAGGACAGGGTTCAGTAGAGGGGGTG
GATCTCCGGCGGCCGGTGGCTAGAGTTTTGTTGTCTCACATTTCGAGGAGTCAGGGGTCGCCGAGAGTGGAAGTATGGAC
TGGCCGGTCCACGGCTTCCACATTAAAAAGGCCGAGGCCCCATGTGGCTGGGAGGCTGACAGGCGGGGCTGT--CGTGCA
TGCACATTTATTT-TGGACAGTGGGAGGTAGGTGGCTAGCCGCCACGTGTCCCCGAGGCGGACGAGAAGTGGGC-ACATG
CGTGTCCATTCGTTGTCCGTCTGGACACAAACCA------------------------------------GGAGCAAGTT
TGCTCTGGAAATG-------------------------------------------------------------------
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>chr3D_858
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-------------------------------------------------------------------TAGACTCGAGCAC
GTAACGGAATAGCGGCCCACCTGGA---TCCTCCTCCTCGCACAAAAGACAAAACGTATACGTATCAGATTTCCTTGTGA
GCGGAAAAACTGAAGAGATACATAGAACGTGACGGTAGTACGCCGACGGGCTACCGATGGCATCCAAGGACCATGGAGGC
GGCGCTCCTCGGAAAGACGGATCTGACGACGACTGCGGCTGCGGGTCCTGGACGATAGCTCTGCTCCTGTACACGTCCTT
CTGGCTGGTCA---TGAAGTACCTGCCGCCGATGGATTCCTTGCCCGGGATTCGAGAGCTCGACGGCTCGCCGCCATGCA
ACGACGACAAGCCGACCACGTGCTCCGTGGAGCTAGCCGGCGCCAGGGGGCTCGACCCGGCGCTGG------------CT
CCGGGCGCGACCTCGCCGGCCTTCGACCTCGTCGTGCACGTTGACAATGGCCATGTCTACGAGCTGTGCCATGGCGGCGG
CGACGTCGTCATCTCCTACGCGGGCGTACCCCTCGCGCGCGGGCGCACGCCGAGCTTCCGGCTGGCGGCCAAGGACACGG
GGCGGTGGCCGGTGAACGTAACGGGCGCGGGGCTGGGGATCCCGGCGGATTTGTCTCGCCTCATGACGGCGGAGCGGAGA
TGGGGGGTGGCGCAGCTGGAGATCGACATGGGCCTGGCCTGGCAGTCCTTCACGTGCGACGTTTTGGTCGGCGGACAACC
CGGCGCATCAGCGTGCAGGCTAGCTTAGCACACGTTTT------------------------------------------
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>chr3B_858
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-------------------------------------------------------------------TAGACTCAAGCAC
GTAACGGAATAGCGGCCCACCTGGATCCTC---CTCCTCGCACAAAAGACAAAACGTATACGTATCAGATTTCCTTGTGA
GCGGAAAAACTGAAGAAATACATAGAACGTGACGGTAGTACGCCGGCGTGCTACCGATGGCATCCAAGGACCATGGAGGC
GGCGCTCCTCGGAAAGACGGATCTGACGACGACTGCGGCTGCGGGTCCTGGACGATGGCACTGCTCCTGTACACATCCTT
CTGGCTGGTCA---TGATGTACCTGCCGCCGATGGATTCCTTGCCCGGGATTCGGGAGCTCGACGGCTCGCCGCCATGCA
ACGACGACAAGTCGACCACGTGCTCCGTGGAGCTAGCCGGCGCCAGGGGGCT------------GG------------CT
CCGGGCGCGACCTCGCCGGCCTTCGACCTCGTCGTGCACGTGGACAACGGCCACATCTACGAGCTGTGCCATGGCGGCGG
CGACGTCGTCGTGTCCTACGCGGGCGTGCCCCTCGCGCGCGGGCGCACGCCCGGCTTCCGGCTGGCGGCCAAGAGCACGG
GGCGGTGGGCGGTGAACGTGACGGGCGCGGGGCTAGGGATCCCAGCGGATTTATCTCGTCTCGTGACGGCGGAACGGAGA
TGGGGGGTGGCCCAGCTGGAGATCGACATGGCCCTGGCCTGGCAGTCCTTCACGTGCGACGTTTTCGTCGACAGACTACC
CGGCGCATCAGCGTGCAGGCTAGTTTAACACACGTTTT------------------------------------------
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>chr3A_896
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----------------------------TC---CTCCTCGCACAAAAGATAAAACGTATACGTATCAGATTTCCTTGTGA
GCGGAAAAACTGAAGAAATACATAGAACGTGACGGTAGTACGCCGACGTGCTACCGATGGCATCCAAGGACCATGGAGGC
GGCGCTCCTCGCGACGACGGATCTGACGA---TTGCGGCTGCGGGTCCTGGACGATAGCTCTGCTCCTGTACACGTCCTT
CTGGCTGGTCATGATGATGTACCTGCCGCCGATGGATTCCTTGCCCGGGATTCGCGAGCTCGACGGCTCGCCGCCATGCA
ACGAGGACAAGCCGATCACGTGCTCCGTGGAGCTAGCCGGCGCCAGGGGGCT------------GGAGCCGGCGCTGGCT
CCGGGCGCGACCTCGCCGGCCTTCCACCTCGTCGTGCACGTCGACAACGGCCACGTCTACGAGCTGTGCCATGGCGGCAG
CGACGTCGTCGTCTCCTACGCGGGCGTACCCCTCGCGCGCGGGCGCACGCCGAGCTTCCGGCTGGCGGCGAAGGACACGG
GGCGGTGGGCGGTGAACGTGACGGGCGCGGGGCTGGGGATCCCGGCAGATTTGTCTCGCCTCATGACGGCGGAGCGGAGA
TGGGGGGTGGCCCAGCTGGAGATCGACATGACCCTGGCCTGGCAGTCCTTCACGTGCGACGTTTTGGTCGACGGACAACC
CGGCGTATCACCGTGCACGCTAGCTTAAGACACGTTTT------------------------------------------
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>chr3B_928
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---------------------------------------------------------------AACAGATTTCCTTTTGA
GCGAAAAAACCGAAGAGATACATAGAACGTGACGGCAGTACGCCGACGTGCTTCCGATGGCATCCAAGGACCATGGAGGC
GGCGCTCCTCGGGAAGACGGATCTGACGA---CTGCGGCTGCGGGTCCTGGACGATAGCTATGCTCCTGTACACGTCCTT
CTGGCTGGTCA---TGATGTACCTGCCGCCCATGGATTCCTTGCCCGGGATTCGAGAGCTCGACGGCTCGCCGCCATGCA
ACGACGACAAGCCGACCACGTGCTCCGTGGAGCTAGCCGGCGCCAGGGGGCTCGAT------------CCGGCGCTGGCT
CCGGGCGCGACCTCGCCGGCCTTCGACCTCGTTCTGCACGTCGACAATGGGCACGTCTACGAGCTGTGCCATGGCGGCGG
CGACGTCGTCATCTCCTACGCGGGCGTACCCCTCGCGCGCGGGCGCACGCCGAGCTTCCGGCTGGCGGCCAAGGACACGG
GGCGGTGGCCGGTGAACGTGACGGGCGCGGGGCTGGGGATCCCGGCGGATTTGTCTCGCCTCATGACGGCGGAGCGGCGA
TGGGGGGTGGCGCAGCTGGAGATCGACATGGGCCTAGCCTGGCAGTCCTTCACGTGCGACGTTTTGGTTGACGGGCAACC
CGGCGCATCAGCGTGCAGGCTAGCATAACACGTTTTGTTTTGCCTCAGTAGATTCATTTTTTTTTGGGAGTGTCTCGGTA
GATTCATATGGAGCTACGGAAGAACACACAAGAATTACACAATAGATTCA------------------------------
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--------------------------------------------CGTTTGAGTGTTTCAAATCGAGCACTTCATGTCCTT
CTTTTTTTGACATTGTTTGTTTTGAGTTTTTTTT--------TTGCGGAAAACACCCCAGCTCAATAAATAAGGATAACC
GGAGGTACACA--ACACACACCACAGGTTGAAAATTACTCCCAGATCCCTGAGGAGCCAACCCAACACACCCACCGGCGC
GAGCTGCAAGCGCGTCGCCGCCGCCACTCCTACGCGGAGCCGGCGTGACCTTGTTATCTCCGGGCAGGATCTTTGCGAAC
AGGAAGTCGACAACTTTGGACCATACGTATCAACGCGGCGGAGAAGCATTGGATTGGAGAACCACCGGTTTGAAAGCATC
ACCTCTCTCGCCGGTGACGGGAGAGAGGAAAATTTGGCGTGAAA-ATAACCACGCACGAGTATCTGCAGATGCAGCACCG
CTGGCGCAATGCTCCTCTAAAAGCTCCAAGGCTCCGCAACGACGCAGGAGCGCGCATCGCCGGCTACTAGAGCACAAAAC
CAACCACAAGGCCGCTGCCGCCACGCCCGCCTCGATTGGGAAACCGTAGATCCACAAACAACCGTTGCACACCATATTTC
ACATCTTAATCACGAG---------
>SNPs
-------------S-S----------------------------------S-----------------------------
---------------------------------S--S------------------------------S------------
-------------------------------S---------------------------------------S--------
----------S-------------------S------------------------------S------------------
------------S-----------------------------------------S-----------S-------S-----
--------S-----------------------------S--S--------------S-----------------------
------------------------------S----S-------S-----S---S-------S---------S--------
-S-----------------S---S----------------------S-------S-SS-S---S----S-----------
-S---------------S----S----S---S--SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS----------
------S---------S-----------------------S---SS--------SS-S--------------SSSSSSSS
S------S----------------------S----------S--------------------------------------
--------------S-----------------------------------------------------------------
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--S--------------------------S--------------------------------------------------
----------------S------------------------------------------------------------S--
-------------S--------------------------------------------S---------------------
--------------------S-------------------------------S------S--------------------
----------------------------------------------------------------S----S----SS----
---------------------------S----------------------------------------------------
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----------------------------------------------------------------------------S---
------------------S------------------------------SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS-----------------------S-S----------
-------SS-------S---------S--S----SSSSSSSS-----------------------S--------------
--S-S--S---SS------------S------------S-----S------------------------S----------
----S------------------------S----S-------------------------SS------------------
S------------------S-------S-----SS--S-S----------------------S-----------------
--------S-----------------S-----S-SS-SSS-SS-S--------S-------------------------S
----------------------S---------------S--S-S--S----S----------S-----------------
-----------S--S-----------S------------------S---------S---S--S-SS--------S-----
----S-----------SSSSSSSSS
>forward_795
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-------------------------------------------------------CGAGTGTCTGTCCGTTTGGA-----
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>reverse_2439
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--------------------------------------CGGGGAGATAACCACTCACG----------------------
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