>input_sequence_71124
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--------------------------------------------------ATGTCTGCAAGCTGCTGGTTCTTCCGGGCC
CTGTGGCTACCACTGATGCTCGCCGCCGCGGCGACCGAGGA---CCAAGGGGGAGACT------GCTCGGCCAAGAGGTG
CAGCAACATCACCATTTCCGACCCTTTCTGGCTCTCTGACGAGGAGGCGCCAAGATCGTG---------TGGTTCCCAAG
ACTTCGAGGTCGCTTGCCATGACAACAGATTTCCAGGTCTACGGAGCTCTATACCCGGGAGCT------CTGGCTTTGCA
ATCATCGATATCTCTTATGAGGAAAACAGTCTGCGCGTCGTTGATCGAGGCCATCTGGAATTACTGC---AAGCCTCCAA
CAGCTGCCAAGTAACGATATTAAACGCCTCCATCAAACTGGCCCGACCGTTTATGATCGACCCTGTTGGCCTGAACCTCA
TCTTGTACAACTGCACGGAGGAGGCCGCAGC------GGCGGCTGTGGCACGCCGGGACAGAGAGCTGGTGCAGATGAGC
C---TGAGGTGTGGGAACAAGAGCAAGATGTTTGTCCGCACGGGAGTGCGTTACGACGTGACCGGGAACTACGGCCGCTA
CGCTTTGGAGGGCTGCGACGCTGTGGTCACGCCGATGCTGGGCT---CGTCGTCGGGTGGGACG------AACGCGAGCG
ACTACGAGCAGCTCATTGACGATGGCTTTCTCTTGACATGGGATCCCACTCCGG---------GTAAGTTCACCCGCC--
AAATCATCTTTTAA------------------------------------------------------------------
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>chr3D_1_TraesCS3D01G046100
GTCCCTAGGATTTTGAGGTCACCTGCTTCAACGACACTCCAGTTCTCCGCAGGTCTGGATTCAGGGGCTTTGCGATCATG
GACATCTCCTATGAATTTCTTATACTAATTTCTAATCAGGTGGATGTCACTAATTTCCTACCTCTTGCTTTCCCAAGATG
TGGGTCGACGTACTTCACCATAGCCTATATATACTGGTCAAATTGACACGTGCTGCCGGACGTGCTTGTTTGAGTTAGAT
TTTCTCTGGATATCTTTGCGGCACGATGGCGGCATATTAGCCTTGCGCTAGTTACAGCAGTCTCCTTTCTCCCTTCCAAG
GCAGAGTACTGTCGCTGGGAAACTATTGCGCATTGCTAGAAGTTTGTTTAACAAGTTGAACTGGTTGTACAGAACGTGTT
GTATAGAAAGAATTCTGAAGACTAGAATCCTGCCTCTCTTGTAATTCATTTGAATCTACGGATTTGCTATTACAAAGTTG
GGTGTGAAATTGCTTTTCTGACGCTGGCCAAGTCACACATCATAAATGCAAGGTTGAAAAAGGAAATGTGATGCCTAGAT
GTAGAAACGTGAAACAGAAGGTTAGACGGCTTTTTTGAATTGGATACTGTTACCTGCCAAGTGGGAAGGTTGTACAAAGA
TCAGAATCTACTCCTTAT---AGTTAGCAAACAAGAGTAC-------CAAGGCTAAGCATCCTGGCTCCTGTCACATCAC
GGGCTCATGGAGGTCATGGTCATGGCTTACTGCGTCAAAGGGGTATTAGTCTAAAATTTTACTAGTCATTGCTTACTACT
AGTATACGTGGAGGATGATCTCTTGGCCCAAATTTCCAGTCAAATATTCCGGCCAATAGAACTCCGCTCGCTTGCCGTCG
TCCCCATATATGGTTCCAGCTTGGACCACTCTATTCTCTATTACTTGTAGCCTATCTCCCATTGCCCAGGACAACCGATC
CATTCACCCCCTTTGTTGTTCATTGCAATCTTTCCAAATCTGCTGCTCCGATGTCTGCAAGCTGCTGGTTCTTCCGGGCC
CTGTGGCTACCACTGATGCTCGCCGCCGCGGCGACCGAGGA---CCAAGGGGGAGACT------GCTCGGCCAAGAGGTG
CAGCAACATCACCATTTCCGACCCTTTCTGGCTCTCTGACGAGGAGGCGCCAAGATCGTG---------TGGTTCCCAAG
ACTTCGAGGTCGCTTGCCATGACAACAGATTTCCAGGTCTACGGAGCTCTATACCCGGGAGCT------CTGGCTTTGCA
ATCATCGATATCTCTTATGAGGAAAACAGTCTGCGCGTCGTTGATCGAGGCCATCTGGAATTACTGC---AAGCCTCCAA
CAGCTGCCAAGTAACGATATTAAACGCCTCCATCAAACTGGCCCGACCGTTTATGATCGACCCTGTTGGCCTGAACCTCA
TCTTGTACAACTGCACGGAGGAGGCCGCAGC------GGCGGCTGTGGCACGCCGGGACAGAGAGCTGGTGCAGATGAGC
C---TGAGGTGTGGGAACAAGAGCAAGATGTTTGTCCGCACGGGAGTGCGTTACGACGTGACCGGGAACTACGGCCGCTA
CGCTTTGGAGGGCTGCGACGCTGTGGTCACGCCGATGCTGGGCT---CGTCGTCGGGTGGGACG------AACGCGAGCG
ACTACGAGCAGCTCATTGACGATGGCTTTCTCTTGACATGGGATCCCACTCCGG---------GTAAGTTCACCCGCC--
AAATCATCTTTTAATCAAGTTCCTAGCTAGTGCGGTGCATAATTTTCTAGGCTTTCTGTATCGAACTAAGCAATCAGGCA
TGTCACTCACTAACCGAGCATAAAGCTGAGGTTCATCGTGCATAATCGCGCGGATGTTCACCGTACATGATTGTTTTAGA
AAAATGCCTTTATATTGAAAAATAAAGAATATTACCAGAAACCACTTTAATGGAACGATACTTTAGAAATCTCTTTAGTA
TAGGTCAAAAATTGTTCCGTCTAATATCTAGATTTGTTGGTACGGTCTGGGGAGATTCTTGCGTACATTAAATGAAAAAA
TAGCAGTGCAACTGCTTGGTAGAATCACAAAAAAATTGAAAATATTTTATTTCATATATAAATTATTTTCATATTAATTT
TAAATGTTTGTGACTATTAATTAATTATGTTACTCAAAAGAGGTGTTTGTGTATTTCAGAACAAATATTCATATATTTGA
GAAAATATTTATGATTTTAAGAGAAATGTTCATCGGCAAATGCAATCATTCTCTTAGCCCATAATTAAAGAAAAAACTAA
AATAATAAATATCAAAGTATTCTCTAAAACAGGAAAAAGGAAGTGAAAAAGAAAATAAATAATAAAAGTAAAAAAAATCC
AACACCATGCAGACATATAATTTTCTTTCAAGATGTGATGCAAAGTCCGACGGGGTGGTTTAACTTCCTTTTTCGATGAA
AAAAAAAAAACTTAACAAGATAACTCAACAGGAATTTTCTCTGGAATTAGGCACAAGGTGGCTGGTGGAAATTTTTCTTG
GAATTCTAACCCCAAGATTCAAATACTCCCTTCATCCCGAACTACCTGTCTTACATTTGTCTAGATAAGTAATTTGTGAA
CATGTTTTAGTGTTAGACAAGTAATTTGTGATGGAGGTAATATGTTTTATAGAAAGAATTATAAATACTAAAATCAACAT
ATTCATTAAAAAAACTAAAATCCTACAAAATCCGTTGTAATTCATTTCGATAAA
>chr3B_8
-------GGATTTTGAGGTCACTTGCTTCAACGACACTCCAGTTCTCCGCAGCTCTGGATTCA-GGGCTTTGCGATCATG
GACATCTCCTACGAATTTCTTGTACTAATTTCTA-TCAGGTGGCTGTCACTAATTTCCTGCCTCTTGCTTTCCCAAGATG
TGGGTAGGCGTACTTCACCCTAGCCTATATATACTAGTCAAATTGACACGTGCTGCCGGACGTGCTTGTTTGAGTTGGAT
TTTCTCCGGATATCTTTGCGGCACGATGGTGGCATATTAGCCTTGCTCTAGTTACAGCAGTCTCATTTCTCCCTTCCAAG
GCAGAGTACTCTTGCTGGGAAACTATTGCGCATTGCTAGAAGTTTGTTTAACAAGTTGAACTGGT---------------
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---------------------------------------------------------------------TTGTACAAAGA
TCAGAATCTACTCCTTATTATAGTTAGCAAACAAGAGTACAAAGTGACAAGGCTAAGCATCCTGCCTCCTGTCACATCAC
GGGCTCATGGAGGTCATGGTCATGGGTTAGTTCGTCAAAGGGGTATTAGTCTAAAATTTTACTAGTCATTGCTTACTAGT
C-----CGTGGAGGATGATCTCTTGGCCCAAATTTCCAGTCAAATATTCCG--------------GCTCGCTTGCCGTCG
TCCCCATATATGGTTCGAGCTTCGACCACTCTATTCTCTCTTACGTGTAGCCTATCTCCCATAGCTCAGGACAACCGATC
CAGTCACCCCATTTGTTGTCCACTGCAATCTTTCCAAGTCTGCTGATCCGATGTCTGCAAGCTGCTGGTTCTTCCGGGCC
CTGTGGCTACCACTCATGCTCGCCGCCGCAGCGACCGAGGA---CCAAGGGGGAGACT------GCTCGGCCAAGAGGTG
CAGCAACCTCACCATTTCCGACCCTTTCTGGCTCTCTGACAAGGAGGCGCCAAGATCGTG---------TGGTTCCCAAG
ACTTCGAGGTCGCTTGCCATGATAACAGATTTCCAGGTCTACGGAGCTCCATACTTGGGAGCT------TCGGCTTTGCA
ATCATCGATATCACTTACAAGGAAAACAGTTTGCACGTCGTTGATCGAGGCAATCTGGAATTACTGC---AAGCCTCCAA
CAGCTGCCAAGGGATGATATTAAACATCTCCGTCAAATTGGCCCAACCGTTTAAGATCGACCCCGCCGGCCTGAACCTCA
TCTTGTACAACTGCACGGAGGAGGCCGCGGC------GGCGGCTGTGGCACGCCGGGACAGAGAGCTGGTGCAGATGAGC
C---TGAGGTGTGGGAACAAGAGCAAGATGTTTGTCCGCACAGGAGTGCGTTACGACGTGACCGGGAACTACGGCCGCTA
CGCTTTGGAGGGCTGCGACGCTGTGGTCACGCCGATGTTGGGCT---CGTTGTCGGGTGAGACG------AACGCGAGCG
ACTATGAGCAGTTCATTAACGATGGCTTCCTCTTGACATGGGATCTA------G---------GTAAGTTCACCCGCC--
AAATCATCTTTTAATCAAGTTTCTAGCTAGTGCGGTGCCAAATTTTCTAGGATTTGTCTATCGAACTAAGCAACTAAGCA
TGCCACTCACTAACTCAGGATAAATCTAAGGTTTATTATGCATAATCGTGCGGACGTTCATCGTA---------------
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>chr3A_957
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------CCCCCTTTTCTGTTCACTACAATCTTTTCAAATCTTCTGTTCCCATGGTACCGAGTTGCTGGTTCTTCCGGGCC
CTGTGGCTACCACTGGTGCTCGCGGTGGCTGCGGCCGAGGA---ACAAGGGGAAGCCTGCTCGGGCTCGGCCAAGATGTG
CGGCAACCTCACCATCTCCCGCCCGTTCTGGCTCACGGACTGGGAAAAGGGAAGACCATG---------TGGTCACCCAG
ACTTTGAGGTCTCTTGCGTTAACGGCAGTT---CATTTCTAAGGAGCTCA-TGCCCTTTAGCG------GTGGCTTTGCA
GTCGTCAACATCTCTTACCAGGAGGAAAGCTTGCACGTGGTTGATAGTGGCAAGCTGTACTTGTTGCTGGACGCCTCCAA
CAGCTGCCGAGTACCGATCTGGAACACCTCTGCCAAGCTCGGCGTCTCGTTCAGCGTCAATCCCGGCAATCTGAGCCTCA
TCGTGTACAATTGCACGGAGGAGGGCGCGGC------GGCAGCCGTGGCTCGTCGGGATAGAGAGCTGGTGCAGACGGGA
C---TGAGGTGCGGGAACGAGAGCGAGGTGCTTGCCCGCGCGGGAGTGCGTTACGACGCCACCGGAAACTACTCTGGCTA
CGCTTTGGAGGGCTGCGACGCTAGCATCGTGCCGGTGCTGGGCT---CGTCGTCGGGCAGGACG------AACGCGAGCG
ACTACATGCAGCTCATCAAGGATGGCTTTCTCCTCACATGGGTGCGCCCCCCTACCTTTGCACGTAAGTTCACCCGCCGC
AAATCATCTCTTTAATCCACTTCCT-------------------------------------------------------
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>chr3B_1026
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---------------------------------------------------------------------------GGGCC
TGGTGTCTACCTCTGATGCTTGCGGTCACGGCGGCTGAGGAGCAACAAGGGGGTGGCT------GCCCGGCGAAGAGGTG
CGGCAACATAACTATCTCCGACCCATTCTGGCTCACTGACAGGGAGACGGGAAGATCATGTGATTGGCCTGGTCCCCCAG
ACTTCGAGCTTACATGCTTTAACAGCAGCTATCCAGTTCTACAGAGCTCTGTGCCCTTCAGTC------CCGGCTTTAAG
ATCATCAGTATCTCCTATGGAGAACGCCGCTTGCGCGCAGTTGATCTGGGCAGGCTGGAACTATTTC---ACGCCTCCGC
CAGTTGTCTGCCAATG---TGGAACACCTCCGTCAAACTGGCCCGCCAGTTTAGGATCGACCCAATCAACCTGAACGTCA
TCTTTTATAATTGCACGGAGGAGGCTGC------------------GGCACGCCGGGACAGAGAGCTGGTGCAGACGACG
GCAATGAGGTGCTTGAATGCGAGCAATTCGTTTGTTCGTGCCGGAGTGTGTTACGATGCCACCGGGAACTATTCTCGCTA
TGCCTTGGAGGGATGTGATGCTATCATCATGCCGATGCGGGGCT---CGTCTCCGGGAGAGACGTTCACAAACGCGACCG
ACTACGAGCAGCTCATCAACGATGGCTTCCTCTTGAGATGGGATCC----------------------------------
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>chr3B_1033
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--GTGGCTGCCACTGATGCTCGCCGGGG------GCGAGGAGCAGCAAGGGGAAGGCT------GCTTGCCCAAGATGTG
CGGCAACCTCACCATCTCCAACCCATTCTGGCTCCCTGACAAGGGGGCGGGAAGATCTTG---------TGGTTCCATGG
ATTTTGAGGTCGCTTGCCATAACAACAGTTTTCCAGGTCTACGGAGCTCTATACCCTTGGCCTCGGGCCTTGGCTTTGCA
ATCATCGACATCTCTTACAAGGAAAACAGTTTGCGCGTCGTTGATCAAGGCAATCTGGAACTACTGC---AAGCCTCCAA
CAGCTGCCTTGGAATGATATTGAACACATCCGTCAAACTTGGCGAACCGTTTAGGATCAATCCCGTCGGCCTGAACCTCA
TCTTGTACAACTGCACGGAGGAGGGCGCAGC------GGCGACTGCAGCACATCGGGACAGGGACCTGGTAAAGACCGGA
G---TGAGATGCCGGAACGAGAGCAAGGTGCTTGTCCGCACGGGAGTACCTTACGACGCGACCGGGAACTATGGCGGCTA
CGCTTTGAAGGGCTGCGAAGCTGTCGTCGTGCCGGTGATGGGCT---CGTCC---GGTGAGGCG------AACGTGAGCA
ACTACGAGCAACTCATCAGCAATGGCTTCCTCTTGACATGGGATC-----------------------------------
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>chr3A_1035
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----GGCTGCCACCGATGCTGGCCGGAG------CTGAGGAGCAGCAAGGCGAAGGCT------GCTCAGCCAAGAGGTG
CGGCAACCTCACCATCTCTGACCCATTCTGGCTCTCTGACCAGGAGGCGGGAAGATCGTG---------TGGTTCCCAGG
ACTACGAGGTCGCTTGCCAAAACAATGGTTTTCCAGGTCTACGGAGCTCTGTACCTTCGAGCT------CCGGCTTTGGA
ATCATCGATATCTCTTATGAGGAAAACAGTTTGCGCGTGGTTGATCGAGGCCATCTGGAATTACTGC---AAGCCTCCAA
CAGCTGCCAAGTAATGATATTTAACACCTCCGTCAAACTGGCCGAACCTTTTAGGATCGACCCTGGCAACCTGAACCTCA
TCTTGTACAACTGCACGGAGGAGGCAGCGGT------TGCGGCTGCGGCACGCCGGGACAGAGACCTGATGCAGACGAGC
C---TGAGATGTGGGAACGAGAGCAAGATGTTTGTTCGCACGGGAGTGCGTTACGACGCGACCGGGAACTATGGCGGCTA
CGCTTTGGAGGGCTGCAACGCTGTGGTCACTCCGGTGCTTGGCT---CATCGTCGGGCCAGACG------AACGCGTCCG
ACTACATGCAGCTCATCAACGATGGCTTTCTCTTGACATGGGATCC----------------------------------
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>chr3D_1086
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----------------------------------------------------------------GCTCGGCCAGGAGGTG
CGGCAGCTTCACCATCTCCCACCCATTCTGGCTCTCTAACAGTGAGGCGCAAAGATCGTA---------TGGCCCCCAGG
ACTTCGAGGTCGCTTGCCATAACAAGAATTTTCCAGGTCTACGGAGCTCTATACCCTCGGCCTCGAACCTCGGCTTTGCA
ATCATCGACATCTCTTACAAGGAAAACAGTTTGCGCGTCGTCGATCAAGGCAATCTGGAAATACTGC---AAGCCTCCAA
CAGCTGCCATGGAACGATATTGAACACCTCCGTCAAGCTGGCCCAACCGTTTAGGATCAACCCCGTCGGCCTGAGCCTCA
TCTTGTACAACTGCACGGAGGAGAGCGCAGCCGCCGCGGCGACTGTGGCACGTCGGGACAGAGACTTGGTAAAGACCGGA
G---TCAGATGCCGGAACGAGAGCAACGTGCTTGTCCACACGGGAGTACCTTACA---CGACCGGGAACTACGGCGGCTA
CGCTTTGAAGGGCTGTGAAGCTGTCGTCGTGCCGGTGATGGGCT---CGTCG---GGCGAGGCC------AACATGAGCA
ACTACGAGCAGCTCATCAGCGATGGCTTCCTCTTGACATGGGATCC----------------------------------
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>chr3A_1139
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-------------------------------------GACGAGGAGGTGGGAAGATCTTG---------TGGTTCCATGG
ATATTGAGGTCGCTTGCCATAACAATAGTTTTCCAGGTCTACGGAGCTCTATACTCGGAAGCT------TCGGCTTTGCA
ATCATCGATATCTCTTATGAGGAAAACAGTTTGCGCGTGGTTGATCGAGGCCTTCTGGAATTACTGC---AAGCTTCCAA
CAGTTGCCAAGTAACGATATTGAACACCTCCGTCAAAGTGGCCCAACCGTTAAGCATCGACCATGTCGGCCTGAACCTCA
TCTTGTACAACTGCATGGCGGTT------------------GCGGCGGCGCACCGGGACAGATACCTGGTGCAGACGAGC
C---TGAGATGTGGGAACGAGAGCAAGATGTTTGTTCGCACGGGAGTGCGTTACGACGCGACCGGGAACTATGGCGGCTA
CGCTTTGGAGGGCTGCAACGCTGTGGTCACGCCGGTGCTTGGCTAATCGTCG---GGCCAGACA------AACGCGTCCG
ACTACAGGCAGCTCATCAACGATGGCTTTCTCTTGACATGGGATCC----------------------------------
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>SNPs
SSSSSSS---------------S-----------------------------S----------S----------------
-----------S---------S------------S--------S---------------S--------------------
-----S-S-----------S---------------S----------------------------------------S---
------S----------------------S----------------S-----------------S---------------
----------S-S----------------------------------------------------SSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS-----------
----------------------------------------------------------------S---------------
-------------------------S---S-S----------------------------------------------S-
SSSSSS---------------------------------------------SSSSSSSSSSSSSS---------------
----------------S-----S----------------S----S-----------------S--S--------------
--S-------------------S----------------------S----------------------------------
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------------------------------S-------------------------------------------------
-------------------------S-----S---------------------S------------S-------------
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-----------------S-----------------------------S-S--S---------------------------
---------------------S----------------SS-----------S---S-S---------------SS-S---
--S-----------SS--S-----S--S-----S--SS----------S-----S-----S----SSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
>forward_625
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---------------------------------------------ACTGTTACCTGCCAAGTGGG---------------
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>reverse_2037
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------------------------------------TTGGTACGGTCTGGGGAGAT------------------------
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