>input_sequence_63601
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-----------ATGGCTTCTTTGCTCTGTTCACAGATAAAACTAAACAGAGCATATGTTAGGAGGCAGGTTCATGAGAAT
AGACTTACGAGATTGCCTAAGTCTCTTCATTGGAGCCCCTTGCAGTCAGGCCATTTTAAGAACATTGCATTGCGTTGCAC
TAAGAATTTGCCTTGGGAGGCCTCTCTACCATATGCCTCCACAGAGGACGATGCCAGCATTATCATGGGAACAAATGTTG
TCGAAGCTATTGATACAGAAGAAGCTCCAGAGATTCCAATCCTCCAGAGTGACCAGGATGTTGTGGACGTGAGGAATGAA
CCTTCTAAGCAGCCAGCAACATTTAAGCTGCCAATGTGGCTGTTAGGGCCTTCAGTTCTGTTGGTTACCGGTATAGTTCC
AACTTTGTGGCTGCCATTGCCTTCAGTGTTCCTTGGCCCTAACATCGCGGGCCTTCTATCCCTAGTGGGACTCGACTGCA
TCTTTAACATGGGAGCAATGCTGTTTTTCCTTATGGCCGACGCGTGCGGGCGTCCAGAGAACAATTCGTTCGACCTGACA
AGGCAGATCCCAACTACTTACAGGTCTTGGAATCTGGTTGCCAGCATATTAGGCTTTGTTGCTCCTTTTGCCCTGCTTTT
TGCGTCTCATCGGGGAGCTCTGCAGCCACATCTGCCATTCATTCCGTTCTTGGTGCTGCTTGGGCCATACCTGTTACTCC
TTTCGGTGCAGATGCTGACTGAGACGCTTACATGGCACTGGAGATCGCCGGTCTGGTTGGTGGCCCCCGTCGTTTATGAG
GGCTACCGGGTGCTACAGCTGATGAGGGGCCTGCAGCTGGCCAGCGAGATCGCTGCGCCGGGGTGGATGGTGCAGAGCCT
TCGTGGCTTGGTGACCTGGTGGGTGCTGGTCCTTGGGATTCAGTTGATGCGCGTTGCCTGGTTTGCTGGGGTCAGTTCCG
CGAGCGATCCGAGCTACGGATCGAGCGATGATGTGAACAGGTAG------------------------------------
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>chr2A_1_TraesCS2A01G368400
ACTCAAAGTACAGGTTATCCTTAAGTTTCTGGTGTTGTTTAGTACCGTTGCTGCACAGATGTGGTGAATAGCTTGGGAAC
CCCAGTAACCTTTCCGACAGATTGTGTCCGCTGGGGAGAAGAACTAGCAGTTTAGGTC--TGTGTAAAGTAGCATCTTTA
TATCTCCTGGATCATTGGATTCAGGCCTAAATAGTTACCGCTGTCTTGAATCTTATGCAATTTAAGCGGGGGACTTTGTA
TGTCTGGTTTTATAGCTCATACATACTCTGTAATTTTTGCTGTATTTACAACATGTTAAAATCTCACGTGTGCTAGATAA
TTCTTGCAATTTTTAAGTTTATTCCTAAGTGCTTAGGTA-----------------------------------------
--------------------------------------------------------------------------------
----------------------------------TTTATCTTTTGGCTTCCGTCTTGTAC--------------------
-----------------CTTGTTAAACTTTAGGTTTGGTAGTAACTTGTCTTTAATGAGGTGCAGTCGAGTTCCATTTTT
TGGTCCTATGTTTTACCATGTTTCCTGTCTCGGAAGTCAAAAGTATGCTTCCAGTTACAAGTTAACTATTACTCCCGCCA
TCCCATGATATAAGACGTTTTTGCAAGCTAAAACAACAAGAAGTGCTGAAGCTGGAGTTCTTTACTCAAAAATCTGTTGA
ATAAGAAGTATCTAAAAACAGTAACTGCAATCATGGATTTC--------ATTGAATATTTGATCTGCCTGTGGATACTGC
AATTAGTCGTTGTGACATTACCTTTTCTTGTACGCTCTCCTTTCATAACATGGACTGATAATCTTTGGTTCAGTACCATC
TATTAAAAATGGTTGAGTGACATGCCAAGACATAAAGGGCAAGCGTCTAAGCTAACTACTAGATCTAAGTGTTGAGTTTG
TTTTACTGTTGTCAACCTGACATCAAGCTGTATTGCATTTCATTGTTAGCCTGTGTTTGAGTTTATCTTAATTGCTAGAT
ACCT-----CGCCACGGTCCATACATTGGAGGCACTAATTTGTTTCACTTTAATTC----TTTGCAGCGTTGGAATTTGG
CATCCTGTACCATGGCTTCTTTGCTCTGTTCACAGATAAAACTAAACAGAGCATATGTTAGGAGGCAGGTTCATGAGAAT
AGACTTACGAGATTGCCTAAGTCTCTTCATTGGAGCCCCTTGCAGTCAGGCCATTTTAAGAACATTGCATTGCGTTGCAC
TAAGAATTTGCCTTGGGAGGCCTCTCTACCATATGCCTCCACAGAGGACGATGCCAGCATTATCATGGGAACAAATGTTG
TCGAAGCTATTGATACAGAAGAAGCTCCAGAGATTCCAATCCTCCAGAGTGACCAGGATGTTGTGGACGTGAGGAATGAA
CCTTCTAAGCAGCCAGCAACATTTAAGCTGCCAATGTGGCTGTTAGGGCCTTCAGTTCTGTTGGTTACCGGTATAGTTCC
AACTTTGTGGCTGCCATTGCCTTCAGTGTTCCTTGGCCCTAACATCGCGGGCCTTCTATCCCTAGTGGGACTCGACTGCA
TCTTTAACATGGGAGCAATGCTGTTTTTCCTTATGGCCGACGCGTGCGGGCGTCCAGAGAACAATTCGTTCGACCTGACA
AGGCAGATCCCAACTACTTACAGGTCTTGGAATCTGGTTGCCAGCATATTAGGCTTTGTTGCTCCTTTTGCCCTGCTTTT
TGCGTCTCATCGGGGAGCTCTGCAGCCACATCTGCCATTCATTCCGTTCTTGGTGCTGCTTGGGCCATACCTGTTACTCC
TTTCGGTGCAGATGCTGACTGAGACGCTTACATGGCACTGGAGATCGCCGGTCTGGTTGGTGGCCCCCGTCGTTTATGAG
GGCTACCGGGTGCTACAGCTGATGAGGGGCCTGCAGCTGGCCAGCGAGATCGCTGCGCCGGGGTGGATGGTGCAGAGCCT
TCGTGGCTTGGTGACCTGGTGGGTGCTGGTCCTTGGGATTCAGTTGATGCGCGTTGCCTGGTTTGCTGGGGTCAGTTCCG
CGAGCGATCCGAGCTACGGATCGAGCGATGATGTGAACAGGTAGGTTTCTTCAAGCTGCTGTGCTTCTGCTGCTCACTGC
ACGATAGAATGGGTGACATGTTAGTTCTGGTGCATCTGTATTTGCCAGACGTAGTGGACGTAGAATAAAAAAGGGTTTTG
ACTGATAGAAACTTTGAATCGTGCAACTGCTTTGGTATACAGATAAAGTGAAAATTGTACATTGCCTTGATGCTGAACTT
GG-----TATGAGTGTGTAAGAAATACTTTACTTGAATATAGAAGATATATATA-CAAGCTGTTGCCAGTGTGGGTGTTG
CTCCATTTCCTCGGAAGATCTGCGCCTCACGGAGGCTTGTTGCCATGTGAGAAGGATATGGTATCCTTCCTTCATTCACA
TGTTGTGCACTGCCAGGTGAGTTCTTTTGGTGGGTTCAGGATTGTGGGAGAATCTGGAGGAGGTTTGATTCTCAAGATTC
CGACGGAATCGGCCAAAAGAACTAGGCCGACATTCGTGTGCAGGATATTAAAGAAATCTCAACTGGTTGGGTGTGTCATT
TGTGATGGCAACCAAGCGAAGAAAAAACAAGTTATGTCTTTCTCAGATAG------------------TCCTCTT-GATC
CAGATCAAGCAGCACATATCACGCAAAGTTGCAAAGCACCCGACCTAACCCTGTGTTG-TGAGATGCGTACGGTTCGCCT
ACTCTGTTGAAGTTCAGAGAGCAGCTGTCCAAATGTCAAAAGGAATCAGCGAAAATCTAGGCTTGTCAAGCACACGACAA
GCCAAGCGACGC-GGCTTGCGACCTAATGAGTTGATTCAACGCTGCTGGCGTGTGTCGTGCGTCTGGGTTCGATTGTGTA
GGCACCGCACAACTAAGATATTAGAAATTCACCGCAGA----AAAATAAAATTCAGAAATGCAATTGAAGTTGCATATTT
AACTATTTTTGAAATGTAGATCCGGACC----------------------------------------------------
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-----------------------------------TATGTGGAGTTCAAGACACTTTTTACGTGTCTAACAGACA--ATC
TGCCATTGCAAATGCTAGAGCATCTTGGGCAGATGATGTAAAAG
>chr2D_1
ACTTAAAGTACAGGTTGTCCTTAAGTTTCTGGTGTT---TAGTACCGTTGCTGCACAGATGTGGTGATTAGCTTGGGAAC
GTCAGTAACCTTTTCGACAGATTGTGTCCGCTGGGGAGAAGAACTAGCACTTTAGGTC--TGTGTAAAGTAGCATCTTTA
TATCTCCTGGATCATTGGATTCAGGCCTAAATAGTTACCACTGTCTTGAATCTTATGCAATTTAAGCGGGGGACTTTGTA
TGTCTGGTTTTATAACTCATACATACTCTATAACTTTTGCTGTATTTACAAAATGTTAAA-TCTCACGTGTGCTAGATAA
TTCTTGCAATTTTTAAGTTTATTCCTAAGTGCTTAGGTA-----------------------------------------
--------------------------------------------------------------------------------
----------------------------------TTTGTCTTTTGGCTTCAGTCTTTT---------------------T
ACTTAGCCTTCTTGACTCTTGTTAAGCTTTAGGTCTGATAGCAACTTCTCTGTAATGAGGTGCAGCTGAGTTCCATTTTT
TATTGC-ATGTTTTACCATGTTTCCTGTCCCGGAAGTCAAAAGTATGCTTCCAGTTACAACTTACAAATTATAGCTATCA
GTT----------------------AGCAAAAACAATCACAAGAGCTGAAGCTGGAGTTCTTTACTTAAAAACCTGTTGA
ATAAGAAGTATC-----ACAGTAACTGCAATCATGAATTTCTGTACATCATTGAATATTTGATCTGCCTGTGGATTCTGC
AATTCGTCGTTGGG---------------------------------ACATGGACAAGCAATCTTTGGTTCAGTACCATC
TAAT--AAATGGTTGAGTGACATGCCAAGACACAAATGACAAGCA--------------------------------TTG
TTTTACTCTTGTCAACCTGACATCCAACTTTATTGCATTTCATTGTTAGCCTGTGTTTGAGTTTATCTTACCTGCTAGAT
AT-----CTCGCCACGGTCCAGACATTGGAGGCACTAATTTGTTTCACTTCTTTAATTCTTTTGCAGTGTTGGAATTTGA
CGTCCTGTACCATGGCTTCTTTGCTCTGTTCACAGATAAAACTAAACAGAGCATATGTTAGGAGGCAGGTTCATGAGAAT
AGACTTACGAGATTGCCCAGCTCTCTTCATTGGAGCCCCTTGCAGTCGGGCCACTTTAAAAACATTGCACTGCGATGCAC
TAAGAATTTGCCTTGGGAGGCCTCTCTACCATATGCTTCCGCAGAGGACGATGCCAGCATTGTCATGGGAACAAATGTTG
TCGAGGCTATTGATACAGAAGAAGCTCCGGAGATTCCAATCCTCCAGAGTGACCAGGATGTTGTGGACGTGAAGAATGAA
CCTTCTAAGCAGCTAGCAACATTTAAGCTGCCAATGTGGCTGTTAGGGCCTTCGGTTCTGTTGGTTACCGGTATAGTTCC
AACTTTGTGGCTGCCATTGCCTTCAGTGTTCCTTGGCCCTAACATCGCTGGCCTTCTATCCCTGGTGGGACTCGACTGCA
TCTTCAACATGGGAGCAATGCTGTTCTTCCTTATGGCCGACGCATGTGGGCGTCCAGAGAACAATTCATTCGACCTGACA
AGGCAGATCCCAACTTCTTACAGATTGTGGAATCTGGTAGCCAGTATACTAGGCTTCGTTGCTCCTCTGGCCCTGCTTTT
CGCGTCTCATCGAGGAGCTCTGCAGCCGCATCTACCGTTCATTCCGTTCTTGGTGCTGCTTGGGCCATACCTGTTACTCC
TTTCGGTGCAGATGCTGACTGAGACGCTTACATGGCACTGGAAATCGCCTGTCTGGTTGGTGGCCCCCGTCGTTTACGAG
GGCTATCGGGTGCTGCAGCTGATGAGGGGCCTCCAGCTGGCCAGCGAGATCGCTGCGCCCGGGTGGATGGTGCAGAGCCT
TCGCGGCTTGGTGTCCTGGTGGGTGCTGGTCCTTGGGATTCAGTTGATGCGCGTTGCTTGGTTCGCTGGGCTCAGTTCCG
CAAGCGATTCAAGCCATGGATCGAGTGATGATGTGAACAGATAGGTTTCTTCGTGCTGCTGTGCTTCTGCTGCTCACTGC
AGGATAGAATGGGTGCCATGTTACTTCTGGTGCGTCTGCATTTGTCAGATGCGGTGCACGTAGAATAAAAGGA-GTTTTG
ACTGATAGAAACTTTGAATCGTGCAAGTGCTTTGGTATATAGATAAAATGAAAATTGTACATTGACGTGATGCTGAACAG
TGG--AATATGAGTGTGTAAGAAATACTTTACTTGAATACAGAATATATATGCTCCAAGCTGTTGCCAGTGTGGGTGTTG
CTCCATTTCCTCGGAAGATCTGCACCTCACGGAGGCTTGTTGCCATGTGAAAAGGATATGGTATCCTTCCTTTATTCACA
GGTTGTGCACTGCCAGGTGAGTTCTTTTGGTGGGTTCAGGATTCTGGGAAAATCTGGAGGAGG-------CTCAAGATTC
GGGCGGAATCGGCCAAAAGAACTAGGCCAACATTCGTGTGCAGAA-------------TCAACTGGTTGGGTGTGTCATG
TGTGATGGCAACAAAGCGAAGAAAAAACTAGTTATGTCTTTCTCAGATACTCCTTTTGGCGTGCGTACTCCCCTT-GATA
CAAATCAAGCAGC--ATATCACGCAAAGTTGCTAAACACCCGACCTAACCCATGTGCCTTGAGATGCGTACGGTTCGCCT
GCTCTGTTGAATTTCAGAGA------GAGCAATTGTTCAAAGGAATTGGCGAAATCCTAGACCTGTCAACCACACGATAA
GCCAAGCGACAT-GGCTTACGACCTAGTTAGTTGATTCAACACTGTTGGCGTGCGTCGCACGTCTGAGTTCGATTGTGCA
GGCACAACTAAAATTTGC------AAATTCGCCGCAGGAAATAAAATAAAATTTAGTAATGCATTTAAAGCTGCATATTT
AGCTATTTTTGAAATGTAGATCCGGACCCAAGTGAACTTCAAGACACTTTTTATTTTATACCTATCTAACATACGATCGG
CCATTGCAAATGCTAGAGCAGCTCCGACAGATGATGTAAAAGTTGATTTTAAGGATCTACATTTGTACTGTGTTTTATTA
AGAAAATAGTTCTAGGGCAGAAGAGAGACGGTTATTGGGCATCAGGAAATAAAATAAATTTAGTAATTCATTTAAAGCTG
CATATTTAGCTATATTTGAAATGTAGATCCGGACCTATGTGGAGTTCAAGACACTTTTTACCTATCTAATAGACGATATC
TGCCATTGCAAATGCTAGAGCATCTTCGACAAATGATGTAAAA-
>chr2B_48
TTA-----------------------------------------------CTGCACAGATGTGTTAAATAGCTTGGGAAC
CTCAGTAACCC-TTTGACAGATTGTGTCCGCACT---GAAGAGATCGGACTTTAGGTCTGTGTGTAAAGTAGCATCTCCA
TATCTCCTGAATTGTTGAATTCAGGCCTAAGTAG--------GTCTTGACTTTCATGTAATTTAAGCGGGGGAGTTTATA
TGTCCAGGGTTGTAACTCATTCATGAT------TTTTTGTTGTATTCACTAC---TTAAA-TCTCACGCATGCTATATAA
TTATTGCAAGTTTTAAGTTTATTCCTAAGTGCTTAGGTACTCCCTCCGTTCCTAAATATAAGACCTTTTGGAGATTCCAA
TATAGACTACATACGTATATGGACATATTTTAGAGTGTAGATTCACTCATTTTGCTCTGTATGTAGTCCATATGAAAATC
TCTAAAAGGTCTTATATTTAGGAACGGAGGAGTATTTATCTTTTGGCTTCAGTCTTGTACCTGGAACTGTAGAGGCATGT
AGTTAGCCTACTTGACTCTTGTTAAACTTTAGGTTTGATAGCAACTTGTCTTTAATGAGGTGCAGCTGAGTCCATTTTTT
GGTTGC-ATTTTTTACCATATTTCCTATCTCAGAAGTCAAAAGTATGCTTCCAGTTACAAGTTAACTATTACT-------
---------------------------CAAAAACAACCAGAAGTGCTGAAGCTGGAGTTCCTTACTCATAAATCTGTTAA
ATAAGAATTATCTCAAA--AGTAACTGCAATCATGGTTTTCTGTACATCATTGAATATTTGATCTGCCTGTGGATTCTGC
AATTCGTCGTTGTG---------------------------------ACATCATTGAATA--------------------
--------------------------------------------------------------------------------
-------------------------------------------------------TTTGAGTTTATCTTAACTGCTAGAT
ACCTGACCTCTCCATGGTCCAGACATTGGAGGCACTAATTTGTTTCACTTCTTTAATTATTTTGCAGTGTTGGAATTTCG
CATTCTGTACCATGGCTTCTTTGCTCTGTTCACAGATAAAACTAAACAAAGTATATGTTAGGAGGCAGGTTCATGAGAAT
AGACTTACGAGATTGCCCAACTCTCTTCATTGTAGCCCCTTGCAGTTGGGCCACTTTAAAAACACTGCATTGCGATGCAC
TGAGAATTTGCCTTGGGAGGCCTCTCTTCCGTATGCTTCCGCAGAGGATGATGCCAGCATCATCATGGGAACAAATATTG
TTGAAGCTATTGATACAGAAGAAGCTCCAGAGATTCCAATCCTCCAGAGTGACCAGGATGTTGTGGACGTGAAGAATGAA
CCTTCTAAGCAGCTAGCAACATTTAAGCTGCCAATGTGGCTGTTAGGGCCTTCAGTTCTGTTGGTCACCGGTATAGTTCC
AACTCTGTGGCTGCCATTGCCTTCAGTGTTCCTTGGCCCTAACATCGCTGGCCTTCTATCCCTAGTGGGACTCGACTGCA
TCTTTAACATGGGAGCAATGCTGTTCTTCCTTATGGCCGACGCGTGCGGGCGTCCAGAGAACAATTCGTTCGACCTGACA
AGGCAGATCCCAACTTCTTACAGAATGTGGAATCTAATCGCCAGCGTACTAGGCTTCGTTGCTCCTCTGGCCCTGCTTTT
CGCGTCTCATCAGGGAGCTCTGCAGCCGCATCTACCATTCATTCCGTTCTTGGTGCTGCTTGGGCCATACCTGTTACTAC
TTTCAGTGCAGATGCTGACCGAGACGCTTACATGGCACTGGAAATCGCCTGTCTGGTTGGTGGCCCCTGTCGTTTACGAG
GGCTATCGGGTGCTGCAGCTGATGAGGGGCCTCCAGCTGGCCGGCGAGATCGCTGCGCCCGGGTGGATGGTGCAGAGCCT
TCGTGGCTTGGTGTCCTGGTGGGTGCTGGTCCTTGGGATTCAGTTGATGCGCGTTGCCTGGTTCGCTGGGCTCAGTTTCG
CAAGCAATCCGAGCTACGGAGTGAGCGATGATGTGAACAGATAGGTTTCTTCGTGCTGCTGTGCTTCTGCTGCTCACTGC
ACGATAGAATGGGTGCCATGTTAGTTCTGGTGCATCTGCATTTGTCAGATGCAGTGCACGTAGAATAAAAAGT-GTTTTG
ACCGATAGAAACTTTGAATCGTGCATCTGCTGTGGTATACAGATAAAATGGAAATTGTACATTGCCGTGATGCTGAACAG
TGGTGAATATGAGTGTGTAAGAAATACTTTACTTGAATATAGAATATACAGCTG--------------------------
------------------TCTGTGCCTCACGGAGGCTTGTTGCCATGTGAAAGGGTAC-GGTATCCTTCATTCATTCACA
TGTCGTGCGCTGCCAGGTG-------------------------------------------------------------
-----------------------------ACATTCGTGTGCAGGATATTAAAGAAATCTCAACTGGCTGGGTGTGTCATG
TGGGATTGCAAACAAGCGAAGAAAAACCAAGTCATGTCTTTCTCAGATAG------------------TTCTCTTTGATC
CAGATTAAGCAGC--GTACTACGCAAAGTTGCTAAACACCCGACCTAACCATGCGTCG-TGAGATGCGTACGGTTTGCCT
ACTCTGTTGAATTTCAGAGAGCAACTGTGCAAATGTCAAAAGGAATCAGCGAAAA-CTAGACTTGTCAGGCACACGACAA
GCCAAACGACGCCGGCTTAAGACCTAATGAGTTGATTCAACACTGTTGGCGTG---------------------------
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>SNPs
---S------------S-------------------SSS-----------------------------------------
-S-----------S-----------------------------------S------------------------------
---------------------------------------S----------------------------------------
--------------S--------------S------------------------------S-------------------
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--------------------------------------------------S-----------------------------
-------------------------------------S---S-----------------------SS-------------
--S-S-S------------------------------------------------------------------S-SSS--
SSSSSSSSSSSSSSSSSSSSSSSSS---S--------S------------------------------------------
-------------S-------------------------------------------------------------S----
----S---------SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS--------SS-----------------------
--S-SS--------------------------S---S-S-----SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS---
-------S----------------S-S--S-----------------------------------------S--------
---------------------S----------------------------SSS-SS-----------S------------
--------------------------------------------------------------------------------
-----------------S--S--------------------------S-----S-----S--------------S-----
------------------------------------S---S---------------------------------------
------------------------------------------------------------------------S-------
-------------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-----------SS--------------------------
---------------S----------------------S-----S----S-S----S--------------SSS------
-----------------------------------------------S------------------S-----------SS
S-------------------------------------------S------S-S--------------------------
--------------------------------------------------S-----------------------------
-------------------------------------------S-----S-------------SSSSSSS----------
S-S-------------------------S--------------------------------------------------S
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-------------SS-----------------S--S-----------------S--S-----------------------
-----------S-----------S----S--------------------------S----S-------------------
------------------S----------------------S---S-------S----SS------S-----------S-
-----SS-SS--S-SS-SSSSSSS------S------S---------------S--S------S--S---S---------
-S------------------------------------------------------------------------------
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-------------------------------------------------------------S-S-----S----S-----
--------------------------S-S--S-----------S
>forward_727
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-------------------------------------------------------------------ATTACTCCCGCCA
TCCCATG-------------------------------------------------------------------------
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>reverse_1827
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------------------------------------------------------------------TTTGCCCTGCTTTT
TGCGTC--------------------------------------------------------------------------
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>forward_729
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---------------------------------------------------------------------TACTCCCGCCA
TCCCATGAT-----------------------------------------------------------------------
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>reverse_2720
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-------------------------------------------------------------------------------T
TGTGATGGCAACCAAGCGA-------------------------------------------------------------
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