>input_sequence_52240
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CCTAATTGAGCTGATCGCTCGACACCATGCAGCTAGCTAGGACATGGCCGGAGGAGACGAGCTGAGGCTGCTGGGGACCT
GGGCGAGCCCGCACGTCTTGCGAGTACGACTCGCGCTCCACCTCAAGGGCTTGGGCTACGAGTACGTGGAG---------
GAGCAAGGCCTCAAGAACTACAAGAGCGATGAGCTGCTCCTCAACAGTAAGCTGCCGGTGCTGACCCACGGCGGCAAGCC
TGTCTACGGGACGTCGTTGAGCCTAATCCAGGACCTCGACGAGGCCTTCACCGGCGCCGGCTCCTCCCTCCTCCCCGAAG
GCCCCTCCGAGCGTGCTATCGCTCGCTACTGGGGTGACTTTATCGATGACACGGTATTGTACTCCCTCTGTCCCAAATTT
TTTATCTTAGATTTGTCTAAATACGGATGTATCTAGTTACATTTTAGTGTTAGATACATCCGTATCTAAACAAATGTAAG
ACAAAAATTTTGGGACAAAGGGAGTATCTTTTTCTTGATAACAGAAGTCTTTCTCATTAATCATATCATCGCATCAAGCT
GATTATATATAATTGCATAAGAGTTTCACCTTGGGGTCTCTGTGTTATATATAAGCATGTCGCATGTGTGATTGTCATTA
GTTTTGCTTTCTCTTCGACTTCGTATATGCTTTGCACTTTTTAATGACGGTTTTAGTGCTGGTCCTG-----TTATAACT
TGTGTCGTGTGCATCTGCAGCTCGTCAAGGCGATGGAGAAGGCGACATGGAGCGTAACGTGCAGGGAGAAGGCAGGGGTG
AAGGCCCAGATGGCGGCCGCTATGGAGACGCTAGAGGGAGCTATGAGAGAGTGCTCCAAGCCCTTCTTCGGAGGCGATAG
CCCCGGATATGTGGATGTGGTGCTCGGTGGCCTTCTTCCATGGCTGTGCGTCACCGATAAGAGACAACCCAGCATGAAGA
CCTTCGACCCTATCACCACGCCGCTCCTACTCGCATGGCAGGACCGCTTCTGTTCGTTGAAAAAAGTTCAGGGACTCATG
CCAGATGTGGGCGAGCTGGTCGACTTAGCCAGGCCGGTGCCTACTCACTGCTCCCGTGAATCCCTGCAAGTTATTTTAAT
TTTGTCTTCACTTCTTGTGCAAATTGCGACTGCATGTAGTAGATGATTTTAGGTGGCGGCAGAGGGGAGCTCCATGGTGA
TTCCTTTTGTTCTGACTTCGACTGCCTAGTGCTGAGAATGTTACCGTATTGGTGTTGCTACATACTG-------------
--------------------TATGTTGTTCTTTTCGTCTGCGCTCTTTCAATGAAACGTGGTCATACTGCGGCTCATGGG
ATTGTCCGGTATTAGCCACTGTGAGGCATACTTTTTTTGGTTTTCTGGGCCATTCACCTTCAGCGTGTTGAGGGTCACTT
GAATAAAATTTGATTGTGTTT-----------------------------------------------------------
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>chr2B_1_TraesCS2B01G574600
GGTCAAAGTCCTACACTGTTGTTTTAGTATGATTTCATAGCAGTTCGTTGAAGCCGATATAAGACTTTGTTTAGACTATT
TTGATGATACAGTGGTAACGTGTATAGTGCATGACTCGTATGTGTGATACTCCCTCCGTTTCTAAATATTAGTCTTTGTA
GGGATATCAACAAGTGACTACATACGAGTAAAAGGAATGAATTTACACTCTAATATATGCTATATACATCCGTATGTGGT
AGTCCATTTGAAATCTCTAAAAAGACAAATATTTAGGAATGGAGGAAGTAGATAGTTAGGTACCCAACGCCAGAGATAGC
CTAGCACCGATAGGTCATGGTTCCTTCTTCTCTATATAAAATAATCCAAGATTTTCAATCCCTTAAAAGTATCCAAACAT
TTC-----------------------------------------------------------------------------
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-----------------------------TCTTAAGTCTCCTCGATGTTTCCTGGTAGGCACATGACTGTTCTTTGCCAG
CAGATCGATGGCGACTGCAATAATGGGTAGTGTACAATCCACGAGGTGAGGTTGATGT-------GTGCTCGAACAATGT
TCAAATAATGGAATTCTAGTCAAAGTCAAAGAACAGTAGACGTGTACCCAGCTGGCATATGGTCACACTTGAATACTTTT
CTTGTCGAAGAATAGTAGAACCGCTAGGAAGATATGGTTCATAGTACCTCCGTCCTGATTTATAGGTCCTTTTTGTAGTT
TGTGTTAATTTTGACTAAAGATTTAAATAACAAAATGTTAATGCATGTCAAGTAAAATTATCTTATTGGATTCGTATTTG
AACATAATTTTCAAAAATATAATGTTCGGTGACACGCGTAAACATTTTGTTAATTTAATCTATGGTTAAAATTTGGCACG
AAATACAATGAGGACCAATAAACCTAGACGGAGGCAGTACTTCATAGATCAACCCAATAATTTGGTCCACATGTCCTCAA
GAAGGCATATATAACAAGAAAGATCAAAACTCAAAAGCACACGTTAACCTAGCTCTACGTGCAAACTAA-------CCGG
CCTAATTGAGCTGATCGCTCGACACCATGCAGCTAGCTAGGACATGGCCGGAGGAGACGAGCTGAGGCTGCTGGGGACCT
GGGCGAGCCCGCACGTCTTGCGAGTACGACTCGCGCTCCACCTCAAGGGCTTGGGCTACGAGTACGTGGAG---------
GAGCAAGGCCTCAAGAACTACAAGAGCGATGAGCTGCTCCTCAACAGTAAGCTGCCGGTGCTGACCCACGGCGGCAAGCC
TGTCTACGGGACGTCGTTGAGCCTAATCCAGGACCTCGACGAGGCCTTCACCGGCGCCGGCTCCTCCCTCCTCCCCGAAG
GCCCCTCCGAGCGTGCTATCGCTCGCTACTGGGGTGACTTTATCGATGACACGGTATTGTACTCCCTCTGTCCCAAATTT
TTTATCTTAGATTTGTCTAAATACGGATGTATCTAGTTACATTTTAGTGTTAGATACATCCGTATCTAAACAAATGTAAG
ACAAAAATTTTGGGACAAAGGGAGTATCTTTTTCTTGATAACAGAAGTCTTTCTCATTAATCATATCATCGCATCAAGCT
GATTATATATAATTGCATAAGAGTTTCACCTTGGGGTCTCTGTGTTATATATAAGCATGTCGCATGTGTGATTGTCATTA
GTTTTGCTTTCTCTTCGACTTCGTATATGCTTTGCACTTTTTAATGACGGTTTTAGTGCTGGTCCTG-----TTATAACT
TGTGTCGTGTGCATCTGCAGCTCGTCAAGGCGATGGAGAAGGCGACATGGAGCGTAACGTGCAGGGAGAAGGCAGGGGTG
AAGGCCCAGATGGCGGCCGCTATGGAGACGCTAGAGGGAGCTATGAGAGAGTGCTCCAAGCCCTTCTTCGGAGGCGATAG
CCCCGGATATGTGGATGTGGTGCTCGGTGGCCTTCTTCCATGGCTGTGCGTCACCGATAAGAGACAACCCAGCATGAAGA
CCTTCGACCCTATCACCACGCCGCTCCTACTCGCATGGCAGGACCGCTTCTGTTCGTTGAAAAAAGTTCAGGGACTCATG
CCAGATGTGGGCGAGCTGGTCGACTTAGCCAGGCCGGTGCCTACTCACTGCTCCCGTGAATCCCTGCAAGTTATTTTAAT
TTTGTCTTCACTTCTTGTGCAAATTGCGACTGCATGTAGTAGATGATTTTAGGTGGCGGCAGAGGGGAGCTCCATGGTGA
TTCCTTTTGTTCTGACTTCGACTGCCTAGTGCTGAGAATGTTACCGTATTGGTGTTGCTACATACTG-------------
--------------------TATGTTGTTCTTTTCGTCTGCGCTCTTTCAATGAAACGTGGTCATACTGCGGCTCATGGG
ATTGTCCGGTATTAGCCACTGTGAGGCATACTTTTTTTGGTTTTCTGGGCCATTCACCTTCAGCGTGTTGAGGGTCACTT
GAATAAAATTTGATTGTGTTTATCATGAGTAGCAGGATACACACACAGGAAGGATGGCACTTCCTAGAAAGAGCTGGATG
TCACTATTGCCTTTTTTTGCCAGTGGAACATACAACTCATGTGGAG-AAATGTCGCTTGCCCGCGGGGAAATATTTTGAC
ACCTG-AAAATGAAGTATTAGTG-TTTTTAGATGAAAAAGTTGGTTCTGACCCATGTTTTGTCTTGGATGTTGATACAAT
GATGAAAGACACGCGAAA---AGTAGTTGAGAAATAAACAATTGAC-------ATTTAGCCGGGCTATGGATCAGATAAT
GTTACGTCTAATGGGAGTATCATAACTAGTATTATCATGCATGCCAACTAGGCAATTTTGATGTGGTAACGTAGAATTAA
ATGGAGAAAGAGAGGGTCGAGTATCATTTCAGGAATGCCAA--ACACATGTATGATTTTTGTGTACCCTTTTCTCTTCAA
GATTCAGGCCCTCACACGTGATGAATATATGTTACTAGGAGCACATCCAGATCATCATTCTTGACGGGGG--TCTCAGAG
GCCGTTTTTCT----GTAATATAACCAAGGCATTTTCGGTCTCTGAGTTCAAC---TCACTGACCGAAGAAGCCACCTCA
TGACCGTTATTACCTAAAGACACCACCAGATCTCGATGATTTCATCTTTCTGGACAATTTCACCTTTTGAAAATTAAAAG
AAAGAATCAATCCTTTTA--------TTATAATAAGCTCCCATGTTTCTTTACAATGCTCCTCATCTCTGCATTGACGAT
GTACACAACGAAACACTATTCAAAATAAATGACTAACACAGGGCACGTCAATCCTGTTATGTGTCGCCATATTCCTCTTT
ATTTGAAGTTATTCGGTAAATATGGATGGGCGCGGCAACATGCTCATCAATGTTGTAGTAATGTTTAAGGTGTCAGGGCC
ACACGGCTTGTAGAGGGTAAGAAAGTACCATGTGACGACTAACACAGGGACTCCCATCACCAGCACCCTGGCCATACTAC
TCTTGAAACCTTT
>chr2D_1
GGTCAAAGTCATACACTATTGTGTTAGTATGATTTCATAGCGGTTCGTTGAAGCCGATATAAGACTTTGTTTAGACTATT
TTGATGATATAGTGGTAATGTGTATAGTGCATGACTCATATGTGTGATAGATAGTTACTCTA------------------
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-------------------------------------------------------TTAGGTACCCAACGTCAGACATAGC
CTAGCACTGATAGGTCATGGTTCCTTCTTCTCTATA--AAATAATCCAAGATTTTCAGTCCCTTAAAAGTATCCAAACAT
TTCTCTGAGACTACCCACAGTGGGAGTAACATAGGTAGTAACATCACACATATCTAGATAAAATAGATGATGTGGCAAGC
AATAAATGAAGAAAGAGATGCATGTAGTAACATAGCTAGTTACTACTACTATGAGTAACATCACACATATCAAGGCAAGA
TGAATCTATAGCCCAATAAATAAAGTGTTACATATTACCACACATATGTTACTCGCAGAGTAGTAACATGGGCATGTTAC
TACTCTATGTTACTACCCATTGTGGCTAGTCTTACGTCTCCTCGATGTTTCCTGGTAGGCACATGACTGTACTTTGCCAG
CAGATCGATGGCGACTGCAATAATGGGTAGTGTACAATCCGCAAGGCGAGGTAGATGAGTCATGAGTGCACGAACAATGT
TCAAATAATGGAATTCTAGTCAAAGTCAAAGAACAGTAGACGTGTACCCAGCTGGCATATGGTCATACTTGAATACTTTT
CTTGTCGAACAATAGTATCAACC---------------------------------------------------------
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-----------------------------------------------------------------------------CAA
GAAGGCATATATAGCAAGAAAGATCAAAACTCAAAAGCTCACGTTAAGCTACCT-TACGTGTAAACTAAGCTGAGACCGG
CCTAATTGAGCTGGTCGCTCGACACCAGGCAGCTAGGAATGGCCGGA--GGAGGAGACGAGCTGAAGCTGCTGGGGACGT
GGGCGAGCCCGCACGTCTTGCGAGTGCGACTCGCGCTCCATCAGAAGGACTTGAGCTACGAGCGAC--------------
------------------------------GAGCTGCTCCTCAACAGTAAGCTGCCGGTGCTGATCCACGGCGGC-----
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--------------------------------------------------ATAAGCATGTCGCATGTGTGATCGTCATTC
G-TTTGATTTCTCTTCGACTTCATATATGCTTTGCCACTT------------------CTGGTTCTG-----TTATAACT
TGTGTCGTGTGCATGTGCAGCTTGTCAAGGCGATGGAGAAGGCGACATGGAGCGTAACGTGCAGGGAGAAGGCAGAGGTG
AAGGCCCGGGTGGGGGCCGCTATGGAGACGCTAGAAGGAGCTTTGAGAGAGTGCTCCAAGCCCTCCTATGGAGGCGATAG
CCCCGGATATGTGGATGTGGTGCTCGGTGGCCTTCTTCCATGGCTGTGCGTCACCGATAAGAGACAACCCAGCGTGAAGA
CCTTCGACCCTATCACCACGCCGCTCCTACTAGTGTGGCAGGACCGCTTCTGTTCGTTGAAAAAGGTTCAGGGACTCATG
CTAGATGTGGGCGAGCTGGTCGACTTAGCCATGCAGATGCCTACTCACTGCTCGCGTGAATCCCTGCAAGTTATTTTAAT
TTTGTCTTCACTTCTTTGGCAAATTGCGACTTCATGTAGTAGTTGATTTCAGGTGACGAAAGAGGGGAGCTGTATGGTGA
TTCCTTTTGTTCTGACTTCCACTGCCTAGTGTTGAGAATGTTACCGTATCGGTGTTGCTATATTTTGAAAGGTGCTGTCT
TGGTGAGCAAGACAGATACATATGTTGTT-TTTCCGTCTATGCTCTTTCGATGAAAGGTGGTCATACTGCAGCTCATGGG
ATTGTCATGCATTAGCCACTGTGAGGAAAG--TTTTTTGGTTTTCTGAGCCATTCGCCCTCAGCTTGTTGAGGGTCACTT
GAATAAAATTTGATTGTGTTCATCATGGTTGGCAGGATACACAGACCGGAAGGATGGCACTTCCTAGAAAGAACTGGATG
TCATTGTTGCCTTTTTTTGCCAGTGGAACATACAACTCATGTGGAGAAAATGTAGCTTGCCCACAGAGAAATATTTTGAC
ACCTGAAAAATGAAATATTAGTTTTTTTTAGATGACAATGTAGGTTCTGACCCATGTTTTGTCTTGGATGTTGATACTAT
GATGAAAGACACGCGGAA---AGTAGATGAGAAATAAACAATAGACGTTACTGATTTAGCCAGGCTATGGATCAGATAAG
GTTACCTGTAATGGGAGTATCATAACTAGTAGTATCATGCATGCCAACTA-GCATTATTTATGAGGTGACGTAGAATTAA
ATGAAGAAAGAGAGGGTTGAGTATCATTTCAAGAATGCCAAGAACAGCTGTATGATTTTTCTG-----------------
----------------------------------------GCAAATCCAGATCATCATTCTTGACGGGGGGGTCTTAGAG
GCCGTTTTTTT----GTAACATAACCAAGGCATTTTCGGTCTCTGAGTTCAACAACTCACTGACCGAAGATGCCACCTCA
TGACCGTAATTACCTAAAGACACCACCAGATCTCGATGGTTTCATCTTTCTGGACAATTTCACCTTCTGAAAATTAAAAG
AAAGAATCAACCCTTTTA--------TTATAATAAGCTCCCATGTTTCTTTATAATGCTCCTCATCTCTGCATTGACGAT
GCACACAACAAAACTCTATTCAAAATAAATGTCCAACACAAGGCGCGGCAATCCTGTTATGTGTCGCCATACTCCTCTTT
ATTTGAAGTTATTCGGTAAATATGGATGGGCGCGGCAACGCGCTCATCAATGTACTAGTAATGTTTAAGGTGTCAGGGCC
ACACGGCTTGTAGAGGGTAAGAAAATACCATGTGATGACTAACACAGGGACTCCCGTCACCAGCACCCTGACCATACTAC
TCTTGAAACCTTT
>chr2D_1041
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----------------------------------------GAAATGGCCGGAGGAGACAACCTGACGCTGGTTGGCATGT
GGGCGAGCCCTCACGTCCTGCGAGTGCAGCTCGCGCTCCGCCTTAAGGGCCTGAGCTACGAGTTCGTGGAGATGGAGGGG
GAGCAAGGCCTCAAGAACAACAAGAGCGAGCAGCTGCTCCTCAACAGTAAGCTGCCGGTGCTGATCCATGGCGGCAAGCC
TATCCGTGGGACGTCGTTGAGCATAATACAGTACATCGACGAGGCCTTCGCTGGCGCCAGCCCCTCCCTCCTTCCCGACG
ACCACTCCGAGCGTGTTGTGGCTCGTTACTGGGCTGACTTTATCGATGACACGGTATTGTGCTATTTTTTCTAGA-----
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-------------------------------------ATGATTGAAGTTTTTTTTACTAACCTCATCATCAACCGCACAG
-----------------------------------------GAGTTCAAAACATTCTACACGCATGATTGATCGACTTTA
A-TTAAATTCGTCATCTTCG-----TATGCTTTGAGTTTCTTTTATGGTAATTATACACTACGGTGGAGTTATTATAGCT
TGTACCCTGTGTATGTGCAGCTCGTGAAGGCGATGCACAAGGCGGCATGGGGCAAAACAGACGGGGAGAAGGCCGAGGGG
AAGAACCAGGTCGCCTCAGCCGTGGAGACCCTAGAGGGAGCTATGAGAGAGTGCTCCAAGCCCTTCTTTGGAGGCAGCAA
TGTCGGATATGTGGATGTCGTGCTCGGTAGTCTTCTT-------------------------------------------
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>chr2A_2556
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---TG-AAAATGAAATATTAGTG-TTTTTAGATGAAAAAGTTGGTTCTGACCCATGTTTTGTCTTGGATGTTGATACAGT
GATGAAAGACACGCGAAAATTAGTAGATGAGAAATAAACAATAGACGTTATTGATTTAGCCGGGCTATGGATCAAATAAG
GTTACCTGTAATGGGAGTATCATAATTAGTAGTATCGGGCATGCCAACTAGGCAATTTTGATGAGGTGACGTAGAATTAG
ATGTAGGAAGAAAGGGTTGAGTATCATTTCAGGAATGCCAAGAACACTTGTATGATTTTTCTGGCAAACGTCTTCAA---
-------------ACATGTGATGAATATATGGTATTAGGAGCACATCCAGATCATCATTCTTGACGGGGG--TCTCAGAG
GCTGTTTTTTTTTTGGTAACATAACCAAGGCATTTTCGGTCTCTGAGTTCAACAACTCACCGACTGAAGATGCCACCTCA
TGACCGTTATTACCTAAAGACACCATCAGATCTCGATGCTTTCATTTTTCTGGACAATTGAACCTTCTGAAAATTAAAAG
AAAGAATCAATCCTTCTATCATAAATTTATAATAAGCTCTCATGTTTCTTTACAATGCTCCTCATCTCTGTATTGACGAT
GCACACAATGAAACTCTATTCAAAATAAATGACTAACACAGGGCGCGGCAATCCTGTTATGTGTCGCCATACTCCTCTTA
ATTTGAAGTTATTCGGTAAATATGGATGGGCGCGGCAACGCGCTCATCAATGTTGTAGTAATGTTTAAGGTGTCAGGGCC
ATACGGCTTGTAGAGGGCAAGAAAATACCATGTGATGACTAACACAGGGACTCCCGTCACCAGCACCCTGACCATACTAC
TCTTGAAACCTTT
>SNPs
----------S------S----S------------------S--------------------------------------
---------S--------S------------------S-----------SSSSS-SSS-S-SSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS--------------S----S-----
-------S----------------------------SS-------------------S----------------------
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----------------------------------S-----------------------------------S---------
----------------------------------------S-S---S-----S----S-----------S----------
-----------------------------------------------------------------S--------------
---------S-------SS-S-SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS---
-------------S------------------------S--------S---S--S------S------------------
-------------S-------------S--------SS-S-------------------------S------------S-
-------------------------S-----------------S---------S---------S----------------
------------------S----------S----------------------------------S---------------
-S--SSS---------------S----S---S--S--------------S-S------S--S----------S-----S-
S--S-----------S-S-S-----S-------S--------------------------S--SSS-S-SSSSS-SSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS--S-SS-----S---S-S-S---S-SS------SSSSSS-SSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS-S---SS-S----------------------S-------
-S----S---------------S------------SS-----SSSSSSSSS--SSSSS-----S----------------
--------------S------------------------------------------------------------S----
---------S----------------------------------------------------------S-----------
-------------------------------------------------------------------------S------
-------------------------------S-SS-----------------------------S---------------
-S-----------------------------S--S-S----------------S--------------------------
----------------SS-------------S----------S------S-----S--SS-----------SS-------
-------------------S-----------S-----------------S----------S--SS---------------
-----------------------------S---S-----SS--------S------S-------------S---------
------SS-S----------------S-SSSS---------------S-------S--S-----S---------------
--------------------S------SS-S------------S--S-------------------------S-------
---S-S-----------------------------------------------S--------S-S-S-------------
--------------S-----------------------------------------------------------------
--------------------------S---------------S------------------------------------S
-----S-S-----------------------S-------------------------------S---S------------
---S-------------S-----------------------------S------------S--SSSSSSS-SS--SSSSS
SSSSSSSSSSSSS---S--------------S--S---------------------------------------------
---------S---------S--------------------------------------------------S---------
--------------------------------------S---------------------------S-------------
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-S------------S-----------------------------S--S-----------------------S--------
---------------------------------------SS---------------------------------------
------------------------S----------S-------------------S--------------S---------
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>forward_1083
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-----------------------GTTCGGTGACACGCGTAAAC-------------------------------------
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>reverse_2699
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----------------------------------------------------------TTCAGCGTGTTGAGGGTCAC--
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>forward_1459
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-------------------------------------------------------------------------------G
GAGCAAGGCCTCAAGAACT-------------------------------------------------------------
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>reverse_3199
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------------------------------------------------------------------------------AA
GATTCAGGCCCTCACACG--------------------------------------------------------------
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