>input_sequence_87526
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--------------------------ATGACCATAGATCGAACCTATCCTATTTTTACAGTGCGATGTCTGGCTATTCAC
GGACTAGCTGTACCTAT--T-TTTTTTCTTGGGATCAATATCAGCAATGCAATTCATCCAACGATAA-------------
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>chr2D_1_TraesCS2D01G256700
CTCCGCTGCAACCGAGCTCTCAGACGCGGACGAGAGGCCGAGGCCGGAGACCATGGGGCGCTCCCCATGGCACGAGGAGG
AGACGGAGTGCGGACTGGCCGCCATGGCGCGCAGATCTGGCGACAACGACAGAGCGAGGACAAGCGCAGAGGACGGGTGG
CCGCTGTTGCCGGAGTGGCAGGCGGTGGGAGGGTGGCCGCCGGAGTCGGAGCGGCTAGCGGCTGGAAGGTGGACGCCGGC
GCCGGAGTAGCGTGTGGCAGGGAAGAGGAGGAGGGGAGGGAGCGCTCTCTCAGAGTAAATGTTATGTCTACCCATGTATG
CTCTAACTTTTGAAAAATCGTATTTAGATGTTTCCAAGAATTCTGAATATATTTTTTATGTTCACAAGACATATATGTCT
ATCACCCCTAAAAATC-CAGATCAAAATTTGAAACACACATGGAGT-AAAAAAAGACAAATCCAGAATGGATAGTGTCAA
AAGAAGACAACATGAATAGTGTCA-----GACACTATTCACATATGGATTTGTCTTTTTTGTTTCTCAATGTATATTTTT
ATTTTTGATCTGAAGTTTTTAGGAGATATTAAAATATATCTTGTGAACATCCATAA--TTTTTTTAGGATTTTTTGAAAC
ATCTAAACATGATTTTTCAAAATTTGGATCATGGGAGCATGTGAAGGGTGTTATCACCTGATATCTGCCTGTCCGCAAGG
ATAGGGGGTGGCCATCGAACCCGATGCTCGGATGTTTGACAATTTTAGTTATAGGGGACAACATTTTCTCAGATTACTAT
GATATTTCTTTCTTAGAGAAGGCAAGTTTTTTAAAAATAATTGTCATCGTTTAATCTTAATCAGACGACTT-CC-AATGA
ACGATCACCAGTTAGCATTACCGAATAAAAAAGCGGGCAGTGGTTGCCGACAAGGAATTCCATTAATAAACGACCATTTT
GATTCTTTAGAACAACTCGATGAATTTAGTAG------------------------------------------------
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------ATC-TTTTAGGAGGCCCTTAATGACCATAGATCGAACCTATCCTATTTTTACAGTGCGATGTCTGGCTATTCAC
GGACTAGCTGTACCTAT--T-TTTTTTCTTGGGATCAATATCAGCAATGCAATTCATCCAACGATAAACCAAATTCCAAC
TGTAGAACTATGACACAGTCAAACCCGAATGAACAAAATGTTGAATTTTTTACATAGCAAAAGGATTTGGCCCTAGTCTA
CTCTGGCATATGTGGGCACATGTCCTATTCTTCATCAGAGTTCGCCTGGCCTTGGACACCACGGTTGAAGGTGAGGTCGA
CGATCGAGCTGTTGGAGGTGAGATCGATGATGGCCTCATGATAATTGTGGGTCGGGGCAAATGATGTGGAGCTGGCGATG
TTGGCATTGGGCGTGTCAGCCACCACCTGCACCTCC------TCCGCCTTCGTCATGATCTCGTCAAAGAGGCGGTTGCG
CTCTAGATCCATGACACGAAG---------------C---------------GGATAGTGCGAGTGCAGCGCATGGACTC
GAGCATCGCCTGTTGCTCATCCATGATGCCTAGATCCGAAAGTCGGGCTTCCCTATTGTGCAC-----------------
-GTCGGCCACGACTTCGTGGCGACAAGCTCTTCCACCACGCATAGTGAGTCTCAGGCATTGCTCGTGACATTAGAAGAGG
GAATGGGTGGTGCGTCGGAGTCTCGGGCAGAGGAAGATAGCTCTTGGAGGTGGTAGGGTTTGTGCCGTGGCCGATTGAAG
TCTACTACGCAACTTATTCTTGTAGACTCGTGTTGGGCTTCCAAGCGCAGAGTTTTGTAGGACAGTATCAATTTTCCCTC
AAGTGGATGACCTAAGGTTTATCAATCCGTGGGAGGCGTAGGATGAAGATGGTCTCTCTCAAACAACCCAGCAACCAAAT
AATAAAAAGTCTATTGTGTCCCCAACACACCAAATACAATGGTAATTTGTATAGGTGCACTAGTTCGGCAAAGAGATGGT
GATACAAGCATAGTAATGATAGTAGATATTGATTTTTGTAATAGGAACAATAAAAAACACCAAGGTAGCAAGTAACAAAA
GTGAGCAAAAACGACATTGCAATGCTTGAAAATGAGGCCTAGGGTCCATACTTTCACTAGTGCAATCTCTCAACAATGCT
A
>chr2A_318
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-----------------------------------------------------------------------------ATG
CTCTAACTTTTGAAAAATTGTATTTAGATGTTTCAAAAAATTCTGAAACAAATTTGGATGTTCACAAGACATATATGTCT
ATCATCCCTAAAAATTTCAGATCAAAATTCGTAACACACATGGAGT-GAAAAAATACAAATTCAGAATGAATAGTGTAAA
AAGAAGACAACATGAATAGTTTCAGAAATGACACTATTCACATGTGGATTTGTCTTTTTTGTTTTTCAATGTATATTTTT
ATTTT-TATCTGAAGTTTTTAGGAGATATTAAAATATATCTTGTGAACATTCATAATTTTTTTTTTGGATTTTTTGAAAC
ATCTAAACGTGATTTTTCAAAATTTGGATCATGGGAGCATGTGAAGGGTGTTATCACCTGATATCTGCCTGTCCGCACAG
ATAGGGGGTGGCCATCGAACCCGATGCGCGAATGTTTGACAATTTTAGTTATAGAGGACAACATTTTTTCAGATTACTAT
GATATTTCTTTCTTAGAGAAGGCAAGTTTTTTAAAAAAAATTGTCATTGCTTGATCTCAATCAAACGACTTCCC-AATAA
ACGATCACCAGTTAGCATTACCGAATAAAAAAGCGGGCAGTGGTTGCCGACAAGGAATTCCATTAATAACCGACTGTTTT
GATTCTTTAGAACAACTCGATGAACTTAGTAG------------------------------------------------
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------ATCATTTTAGGAGGCCCTCAATGACCATAGATCGAACCTATCCTCTTTTTACAGTGCTTTGACTGGCTATTTAT
GGACTAGTTGTATCTACTGTCTTTTTTCTTGGGATCAATGTCAGCAATGCACTTCATCCAATGATAAACCAAATTCCAAC
TGTAGAACTATGACACAATCAAACCCGAATGAACAAAATGTTGAATTTTTTACATAGCAAAAGGATTTGGCCCTAGTCTA
CTCTGTCATATGCGGGCACGTGTCCTATTCTTGGTCGGAGTTTGCCTGGCCTTGGACACCGCGGTTGAAGGTGAGGTCGA
CGATCGAGCTGTTGGAGGTGAGATCGATGATGGCCTCATGATCATTGTGGGCTGACGTGAATGATGTGGAGCTAGTGATG
TTGGCATTGGGCGTGTCAGCCACCACCTGCACCTCCTCCGCCTCCGCCTTCGTCACGATCTTGTCGAAGAGGCGGTTGCG
CTCTGGATCCATGACACGAAGTTGCACCACTCGCAGC---------------GGATAGTGCGGGCGCGGCGCATGGGCTC
GAGCATCACCTATTGCTCATCCATGATGCCTAGGTCCGAGCGTCGGGCTTCCCTATTGTGCAC-----------------
-CTCGGGCATGACTTCGTGGTGACAAGGTCTTCCACCACGCATGGTGAGTCTCGGCCATTGCTCGCAATGTTAGAAGAGG
GAATGGGTGGTGCGTCGACGTCTCGGGCAGAGGAAGATAGCTCTTGGAGGTGGTAGGGTTTGTGCCGTGGCCGAT-----
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>chr2B_318
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-----------------------------------------------------------------------------ATG
CTCTAACTTTTGAAAAATCGTATTTAGATGTTTCAAAAAATTCTGAATTTTTTATTGATGTTCACAAGACATATA--TCT
ATCACCCCTACAAATC-CAGATCAAAATTCGAAACACGCATGGAGTAAAAAAAAGACAAATCCAGAATGAATAGTGTCAA
ATGAAGACAACATGAATAGTGTCAGAAATGACACTATTCACATATGGATTTGTCTTTTTTGTTTCTCAATGTATACTTAT
ATTTTGTATCTGAAGTTTTTAGGAGATATTAAAATATATCTTGTGAACATCCATAA--TTTTTTTAGGATTTTTTGAAAC
ATCTAAACGTGATTTTTTTAAATTTGGATCGTGAGAGCATGTGAAGGGTGTTATCACCTGATACCTGCCTGTCCGCACAA
ATAGGGGGTGGCCATCGAACCCAATGCGCGAATGTTCGACAATTTTAGTTATAGGGGACAACATTTTCTTAGATTACTAT
GATATTTCTTTCTTGATGAAGGCAAGTTTTTTTAAAATAATTGTCATCGTTTGATCTCAATCAGACGACTT-CCCAATGA
ACGATCACCAGTTAGCATTACCAAATAAAAAAGCGGGCAGTGGTTGCCGACAAGGAATCCCGTTAATAACTGACTGTTTT
GATTCTTTAGAACAACTCGATGAATTTAGTAT------------------------------------------------
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------ATCCTTTTAGGAGGCCCTCAATGACCATAGATCGAACATGTCCCTTTTTTACAGTGCAATGGCTGGCTATTCAT
GAACTAGCTGTACCTATTGT-TTTTTTCTTGGGATCAATATTAGCAATGCAGTTCATCCA-CGATAAACCAAATTCCAAC
TGTAGAACTATGACACAATCAAACCCGAATGAACAAAATGTTGAATTTTTTACATAGCAAAAGGATTTGGCCCGACTCTA
CTCTGTCATATGTGGGCACGTGTCCTATTCTTCGCCGGAGTTCGCCTGGCCTTGGACACCGCGGTTGAAGGTGAGGTCGA
CGATCGAGCTGTTGGAGGTGAGATCGATGATGGCCTCATGATCATTGTTGGCCAGCGCGAATGATGTGGAGCTAGCGATG
TTGGCATTGGGCGTGTCAGCCACCACCTGCACCTCCTCCGCCTCCGCCTTCGTCACGATCTCGTCGAAGAGGCGGTTGCG
CTCTAGATCCATGACACGAAG---------------CTGCACCACTCACAGCGGATAGTGCGGGCGCAACGCATGGACTC
GAGCGTCGCCTGTTGCTCATCCACGGTGACTAGATCCGAGCGTCGGGCTTCCCTATTGTGCACGGCTTCCCTATTGTGCA
CCTCGGCCACGACTTCGTGGCGACAAGCTCTTCCACCACACATAGCGAGTCTCGGCCATTGCTCGCGATGTTTGAAGAGG
GAATGGGTGGTGTGTCAGCGTCTCGGACAGAGGAAGATAGCTCTTGGAGGTGGTAGGGTTTGTGCCGTGGCCGAT-----
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>chr2D_915
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---------------------------------------------GCCGACAAGGAATTCCGTTAATAACCGACCGTTTT
GATTCTTTAGAACAACTCGATGAATTTAGTAGATCCTTTTAGGAGGCCCTCAATGACCATAGATCGAACCTATCCTATTT
TTACAGTGCGATGGCTGGCTATTCACGGACTAGCTGTACCTACTGTTTTTTTCTTGGGATCAATATCAGCAATGCAGTTC
ATCCAACGATAAAACAAATTCCAACTATAGAACTATGACACAATCAAACCCGAATGAACAAAATGTTGAATTGAATCGTA
CCAGTCTATACT-------ATTACTCATTTTTGTACTTGCTGTTTTATTTTCCAATTACTTCTTCAATTGAGAGAAAGAA
AGAGACTAATAAGAATTCTCTTATCCCATTTGGAAGGATACCATCCTTATAACTACCCATGACTGTTTTTGTCTCTAGCA
TGACCAATTGATAAAATGTGGAGGAAAGTAGGGGAAATGGCCGATACTACTGGAAGAATTCCTCTTTGGCTGATAGGTAC
TGTAGCTGGTATTGCTGTGATTGGTTTAGTAGGTGTTTTCTTTTATGGTTCATATTCTGGATTGGGTTCATCTCTATAGT
AATCGGAGGGACTAGATTGTAAACATGAAAAAGTAGGAGCTTAGCGGGTCCTTACCCCCCTTTATCTGATTAGAGCGGAA
AGGACCCGCGGAATTTTTACTCTTATAACGCGAATTGAATCTATTCGATTCACTCTTATGAAGCAACAAGAAAAAGAGAT
CACTCGAGGATCCAATATCTTATTCCACGAAGGAAGTATCCTGAAAATCCTTGATTTAGTTTCGAGTAATAAACTAATAA
AACCTTAATCAAAACTATTCAACTAGCCTAAAAATAAAAAAAAAACCTTCAATGGAAGAGTTTACTTTTTTTTGCAAAAT
TTCTGTAAATTTGAAGTTGAACTTAATTAAACAAGCCAAGCAATTTGCTCACAATCACAAGAAATTTTTCCCCCGCCATA
TTTTCTTCCCCTCTGTTTGTCCACTACCTCGGCTAAACCTAAGCAAAAGAAAAAGAGGTCCAAGAGACAGACCCGAATAA
AGAAGAAATAGTAATCTTTGACGAATTAGGAAGAAAAAGGATTCTTATTTTGATACAAGAAGAATCGGCACAAGAAAAAG
CCTTTTTCTTGTGCCGAATAGACGATTAAGAAGACCTGCAATCCCTCCGAAAAGGAAGAAATTTTAATTTTATTGTTCTC
GCCTTTGCCTTGGATTCTCTTCTTTTGCATGGGATATAAATAAGGAATTCCAGACATCTCATAAACAAAAAGCAGTCTAA
ACAAAAAAAGGATTTCCAAAATAGATCATAGATAATTCTAGCAATTGCCAATAAATCGAGGCTTTTTACCAACTTGATGG
TAAGAAATCCCGGGACCTAGAAATTCATTTNNNNNNNNNNTTATGTCGAAGCAGAGTAAAATAACTTAACAAAATTGAAT
TGTAACTCCAATTTCAATTTGACCTCCTCTCTGGTCTGGAGGAGGTCAATCAAAAAAAATGACTCAATCAAAGATCCAAC
TGATCCCCACGCCTGTATTGCAAATACGCAGTCACGAATAATCCCGCTAAAGTAATAGGAATTAGGCCTAAGACGATTCC
AAATAGAAAAACTTCAATCATTTCGATTTGTTCGAGGGGATAAAAAAAGAGGTACGATCTATCCCTAAATAGTACTCTAA
ATTATCCACGAATCTCAATGACCAAGAAAAGAATTCCTAATTAGTCTGGAAAAGAGTCGTAGAATGCCAGGAATCCCAAA
GAAAGATTTTTCTTTTCTGAATTATAATTATTCAGTCAATTCAAATAAGGCGTATCTTGTTCAAGCCAATAAATAGAGCT
GGGGTTATAGTTAAAGCAGCCAGTAGAAAACCAAAATAACTAGTTAAAGTAAGCATGAAAGAGTTAAATTCCATTTATTT
ATTTTTACTACACTACATATGTTGGTAAAGCATTTACCTAAGTTATGGAAAATTCAGAATTCATCAGTTATTTTAGATAA
TACTAAAAAACAAGGTAGAGTAAGATACAGAAGTGTAAAAGAAAGTGGATTCATCAGATGATACATGAGTCCCTAATTCC
GAATCAAGAGATTTGTTGTGGAATTTGTCAATTGAGTAAAGTAATAATATTAAGAACTAGATCATCTAACCCCATTGAAT
TTCATTTTTTCATTCAATTTTCAGGGAAATTTTTGAATAAGAGATAAATAAACAATTGAATTTGAAAAAAAAAACTTCTT
TCTATTTTGGATAATTTCTTTTTCAATAGGACCCTCTTTTTGGAGTGAACGATCGAATATTCCCCTATTCCTTCTTATTT
TAACTGATTGTATTCCATATGGAATAAGAGGAGAACAAAAGCATTCCACGACCTGCCAAGGGGCTGTTAAAAAAAAAAGC
TCTTCCTTGAATTTACTTTATTTTTATTCCTTTTTCGAACTCCAACCAAAGTAGATTCGAAGACGAGTCACTTCAATTAT
CCTTTTAAGTTCTATTCTATCTTCTGTCTTTCCCTATTTCATCTCGTAAAGTTCCGCGCTCGCAGTTTGGTCAAGAAAGT
TAGACCTAATCCAACAAACAATACAAGGATGAATTACGAATTATGAAAGGATAGATTTCACATATACTTGTCCTTGTATT
GTGTCAGTATGAGAATATCCTTCCTAAATTATTTATCCAAACCTATTGATCATTAACTTAGATTTTCCCAAGATTTTGGC
TGCTATTCCGAATTACTCTATTATTCCGAAGCCAATGAAAAGTAAGTAGAACCTACAAAAATGGGGTTTTCTATTGATGC
CTTGAATAACATATAGCTTACCTATAGACAAAAAAAGTAATTATGTTTCGGAACCAGGCAAAACCAGATTGCTGTGCCAT
AGGAAGGATAGCTATACTAATTCGGTATACTCAAAATACACCTTTGGTACAAAATTGACAATCTCACAAGGATGAAATAT
CAGTAATTTTCTATTTACTGGTCGATCCCATCTTTTACGGAATCAATTCCTTTTTTGAATGTACAAAAATTTTGGGAGTT
CAGCATGTCTGGAAGCACGGGAGAACGTTCTTTTGCTGATATTATTACCAGTATTCGATACTGGGTTATTCATAGCATTA
CTATACCTTCCCTATTCATTGCGGGTTGGTTATTTGTCAGTACGGGTTTAGCTTATGACGTGTTTGGAAGTCCTAGGCCA
AACGAGTATTTCACGGAAAGCCGACAAGGAATTCCGTTAATAACCGACCGTTTTGATTCTTTAGAACAACTCGACGAATT
TAGTAGATCCTTTTAGGAGGCCCTCAATGACCATAGATCGAACCTATCCTATTTTTACAGTGCGATGGCTGGCTATTCAC
GGACTAGCTGTACCTACTGT-TTTTTTCTTGGGATCAATATCAGCAATGCAGTTCATCCAACGATAAACCAAATTCCAAC
TATAGAACTATGACACAATCAAACCCGAATGAACAAAATGTTGAATT---------------------------------
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>chr1D_915
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---------------------------------------------GCCGACAAGGAATTCCGATAATAACCGACCGTTTT
GATTCTTTAGAACAACTCGATGAATTTAGTAGATCCTTTTAGGAGGCCCTCAATGACCATAGATCGAACCTATCCTATTT
TTACAGTGCGATGGCTGGCTATTCACGGACTAGCTGTACCTACTGTTTTTTTCTTGGGATCAATATCAGCAATGCAGTTC
ATCCAACGATAAACCAAATTCCAACTATAGAACTATGACACAATCAAACCCGAATGAACAAAATGTTGAATTGAATCGTA
CCAGTCTATACTGGGGTTTATTACTCATTTTTGTACTTGCTGTTTTATTTTCCAATTACTTCTTCAATTGAGAGAAAGAA
AGAGACTAATAAGAATTCTCTTATCCCATTTGGAAGGATACCATCCTTATAACTACCCATGACTGTTTTTGTCTCTAGCA
TTACTATACCTTCCCTATTCATTGCGGGTTGGTTATTTGTCAGTACGGGTTTAGCTTATGACGTGTTTGGAAGTCCTAGG
CCAAACGAGTATTTCACGGAAAGCCGACAAGGAATTCCGTTAATAACCGACCGTTTTGATTCTTTAGAACAACTCGATGA
ATTTAGTAGATCCTTTTAGGAGGCCCTCAATGACCATAGATCGAACCTATCCTATTTTTACAGTGCGATGGCTGGCTATT
CACGGACTAGCTGTACCTACTG----------------------------------------------------------
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--------------------TTTTTTTCTTGGGATCAATATCAGCAATGCAGTTCATCCAACGATAAACCAAATTCCAAC
TATAGAACTATGAC------------------------------------------------------------------
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---------------------------------------------------------ACAATCACACAAGGATGAAATAT
CAGTAATTTTCTATTTACTGGTCGATCCCATCTTTTACGGAATCAATTCCTTTTTTGAATGTACAAAAATTTTGGGAGTT
CAGCATGTCTGGAAGCACGGGAGAACGTTCTTTTGCTGATATTATTACCAGTATTCGATACTGGGTTATTCATAGCATTA
CTATACCTTCCCTATTCATTGCGGGTTGGTTATTTGTCAGTACGGGTTTAGCTTATGACGTGTTTGGAAGTCCTAGGCCA
AACGAGTATTTCACGGAAAGCCGACAAGGAATTCCGTTAATAACCGACCGTTTTGATTCTTTAGAACAACTCGATGAATT
TAGTAGATCCTTTTAGGAGGCCCTCAATGACCATAGATCGAACCTATCCTATTTTTACAGTGCGATGGCTGGCTATTCAC
GGACTAGCTGTACCTACTGT-TTTTTTCTTGGGATCAATATCAGCAATGCAGTTCATCCAACGATAAAACAAATTCCAAC
TATAGAACTATGACACAATCAAACCCGAATGAACAAAATGTTGAATT---------------------------------
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>SNPs
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS---
----------------------------------S--S----------S-------S-----------------------
-----------------------------S---------------------------------------S----------
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-----SS-------------------------------------------------------------------------
--------S--------------------------------------------------------------------SS-
---------------------------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--------------
--------------------------------------------------------------S-S---------------
---------------------------------------SS---------------------------------------
-S---------------------------------------------------S-S---------S--SS----------
------------------S--------------------------------------------------------SSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
S
>forward_144
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--------------------------------------------AACGACAGAGCGAGGACAAG----------------
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>reverse_5150
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-----------------------------TGGGAGGCGTAGGATGAAGA-------------------------------
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