>input_sequence_61341
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--------------------ATGTGTGGCGGAGCGATCCTCGCCGAGCTCATCCCGGG---CGCGCCGGCTCGCCGCGCC
GCGTCCGGCCACGGCCACGTCTGGCCCGGCAAGGGCGCCAAGCAGACAAAGGCCGCGGCGGCCGACGACTTCGAGGCCGC
GTTCCGGGAGTTCAACGAGGACTCTGATG---AGGAGGACGTGGTGATGGTGGTGGAGCGGCAGGAGGAGGTGGCCGAGA
GCAAGCCCTTCGTGTTCGCCGCTTCGCCCAAGAAGAAGCAGCAGCAGCAGCAGGAGGAGGAGGAGGAGCAGGCGGCGCCC
GCCCGCCGCAGGAAGCCGGCGCAGTACCGGGGCGTGCGGCGCCGGCCGTGGGGCAAGTGGGCCGCCGAGATCCGCGACCC
TGTCAAGGGCGTCCGCGTCTGGCTCGGCACCTTCCCCTCCGCCGACGCCGCCGCGCTCGCCTACGACGAGGCCGCGCGCG
CCATCCGCGGGCCCAGGGCCAAGCTCAACTTCCCTTCCTCCTCCGCCGTCGCCGCCGCGGCCCCGGGAGCACGCAAGCGA
GGCCGCGCCGGCGCCGACGCGGCCCCCGCTGCCAAGCCAGCGCAGGTCATCACCCTCGTCGACGAAGAGGAGGAGCACGC
GTCGTCCTTGTTCGTCAAGCACGAGGCCGACGCGAGCGAGGGCTCCGAGTCCAGCGGCGCCCTCCCCGACTTCTCGTGGC
AGGGCGTGTCGGCGTTCGACGAGGCCCCGGCGTACCCCGCCCCGGAGCCCGAGACCGAGCAGCTCGCGAAGCGGGCGAGG
ACGACGGAGGCCGAGGACGCCGACGAGGGCATGTCGGCCCACCAGGCGTCCGACTGCGACTCCGACGCGCTGTTCGACGC
GCTCCTCTTCGCCGACCAGTTCGCCTACTTCAACGGCGGCGCCTACGAGTCCCTCGACAGCCTCTTCAGCGCCGACGCCG
TGCAGAGCGGCGCCA------C------CGCCGCGGACGAGGCGGCCCTGGGGCTCTGGACCTTCGACGACGACTGCCTC
GTCGACGAGTGCAGCCTGTCGTTCTAGATCTTCTTGTTCCGCGTGCGTCC-GTTCATGTCATGCGATGCGGTGGTGTAA-
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>chr4D_1_TraesCS4D01G298600
GTGCACCCCACAAGCTTCATGTAACCGTCCGTTGTTCCTGAGGCTACGGCCTGTTTTGAAGTATAAAGGAGGCCTGGAGC
CCCTTTCTTTTTCAAAAAAAAAATCGCACTGTTTAAATGTTGCCGGCCGGGCTTGGGCTTTGAATTTCCACTCGAGGACT
TTTCAAGCCAGGTCTGACCCGGGGTATGATGAGGTCTAGAGCGCCTAACAATTTTATTATTGCGAACCAACCTGTAGTTG
GATTATTAGATGGACAGTGGTATCCTCGGCCCACCAGGGTTCAAATCCTAATGCTCGTATTTCTCCTGGATTTATTTCAG
GATTTCCGGCAACACACATTCAATGAGAGGAGACGTTTCCGTCGACTACGAGACGTCTACGGTGACTTTGTAAAATCTCA
AGACGATATGCCGATAAAAAAACAATTTTATTACTTTTTTGAAAAATGTTTATGGCAAAGCTGAACCGTGCGTGAACACC
AAGCTGTTAACTTTGACCCTTGGCCACATGTTTGTTTGTTCAACAAAGCTGTATGTATCCCCATCGTCCTTGGCTGGCTC
CTCCGGTCTTATCAAGAAAAGAAAAGAAAAACAGTAGACTACAAA-GCTTAAGCACTTGCTTAAATGAAGAGAAGGCCCC
ACTTGA--------------------------------------GCAGCCACTTGACAATACAGCCTTTCCCACAAACTC
GGGGGCGCCCAAAGGAGGTTT-----------------------------------------------------------
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-------CGGGAAGGAGCGTGGGAAGACGGCAGATGCGGGGCACCT---------------CTCCGCGTCCGAGCCGAGC
CGAGCTGAGCTGTCCCCGTGGACGGCGACGCGGCCAGCCGGCCTTATCGCATCCGCCCCCCATTCCCGCGATTTCGGGAG
CCACCATTCCTCTCC--CCCTACTTAACAGCGCCTCCACCCCAC---------CCAACTCAACACGCAAAGCAGAGTCCA
TTCCACTAGTCG-AGAGAAAATCAAGAGCAGCGACCAGAGCTAGGGGGGAAAAGCAGAGGCAAAGCATCGAAAG------
--AAGAGAAAGAGAGCGAGGATGTGTGGCGGAGCGATCCTCGCCGAGCTCATCCCGGG---CGCGCCGGCTCGCCGCGCC
GCGTCCGGCCACGGCCACGTCTGGCCCGGCAAGGGCGCCAAGCAGACAAAGGCCGCGGCGGCCGACGACTTCGAGGCCGC
GTTCCGGGAGTTCAACGAGGACTCTGATG---AGGAGGACGTGGTGATGGTGGTGGAGCGGCAGGAGGAGGTGGCCGAGA
GCAAGCCCTTCGTGTTCGCCGCTTCGCCCAAGAAGAAGCAGCAGCAGCAGCAGGAGGAGGAGGAGGAGCAGGCGGCGCCC
GCCCGCCGCAGGAAGCCGGCGCAGTACCGGGGCGTGCGGCGCCGGCCGTGGGGCAAGTGGGCCGCCGAGATCCGCGACCC
TGTCAAGGGCGTCCGCGTCTGGCTCGGCACCTTCCCCTCCGCCGACGCCGCCGCGCTCGCCTACGACGAGGCCGCGCGCG
CCATCCGCGGGCCCAGGGCCAAGCTCAACTTCCCTTCCTCCTCCGCCGTCGCCGCCGCGGCCCCGGGAGCACGCAAGCGA
GGCCGCGCCGGCGCCGACGCGGCCCCCGCTGCCAAGCCAGCGCAGGTCATCACCCTCGTCGACGAAGAGGAGGAGCACGC
GTCGTCCTTGTTCGTCAAGCACGAGGCCGACGCGAGCGAGGGCTCCGAGTCCAGCGGCGCCCTCCCCGACTTCTCGTGGC
AGGGCGTGTCGGCGTTCGACGAGGCCCCGGCGTACCCCGCCCCGGAGCCCGAGACCGAGCAGCTCGCGAAGCGGGCGAGG
ACGACGGAGGCCGAGGACGCCGACGAGGGCATGTCGGCCCACCAGGCGTCCGACTGCGACTCCGACGCGCTGTTCGACGC
GCTCCTCTTCGCCGACCAGTTCGCCTACTTCAACGGCGGCGCCTACGAGTCCCTCGACAGCCTCTTCAGCGCCGACGCCG
TGCAGAGCGGCGCCA------C------CGCCGCGGACGAGGCGGCCCTGGGGCTCTGGACCTTCGACGACGACTGCCTC
GTCGACGAGTGCAGCCTGTCGTTCTAGATCTTCTTGTTCCGCGTGCGTCC-GTTCATGTCATGCGATGCGGTGGTGTAAA
TAGAGTAGCTTGCCTTGTGAAA----------------------------------------------------TCTGTG
TAAGAGTTTGACATCGTTGTGAAAGATTTTGCCTACGCCTTCGATGCAAAAGCTCGATGACTTCGGTTGCTGAAATGTTC
TTCAAAGAACTCTTCTTTCTCTGCGGTTGCTATGCCGCCATCCAACGAAATGTTCAAATTCACGGATCCATCAGGCAGCA
AGTTGCTTGCAGCGGATTGGGTTCCAG-----------------------------------------------------
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-------------------------------------------------------------------------------A
AGAAAAGCAAATGGGATCAACAAAAGTTGCAGGTTTATCCCTGCCCTCCATTAACTTGAGCATCGCGCTCGGATCTCCTC
CG------------TGCCGTGCCATATCGCAGTGTTGTGACAGGACCGGAGCC-AATCCAACAAGAG-CACATGTCGTGC
AGCTCGTGTTGGTCATTGTCACTTT-GTCATGGACACAT-----------------------------------------
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---GGACTGAGGCGAAGACAGGAGCAGTGCTTTTGGTTGATCCGGGATGAGCAGTTGGCTGGTGAAGTTTATCTTGCTTG
CCAGACAAGAAATTCATGTGACTCTTTTTCATAAACAATATTTGTAGCTATAAGTAAACCGTGGTAATCACTGCGTTAGA
GCATCTCTAGTCCTTTCCCTGTGATGCTTTAATCCCCTATACAATATGTTTTGGCCTCCTCCAATACATTAGTGTTTAGC
TGAGGTGTTAAGTGATTGAAAAACTTAGCAATTAAGCTGCTCAATGCATAGGGGCTTAGTTTTTTAGATAAACTTTCTTC
GTTTAATTGTTTAGCAACAAAACATCTTTGTGCATTGGTTGATAGGAATTTTGGA---------GTCGCTTGACATCCGT
TTCTTTTTTAGGTCACCAAATTGTTCGCTCCTCAATTGCTTTGCCATATCAGTTTTTTTTGCCTATATGGTATTCTTAGC
ACATGTACACCATGAAGCACTA-AAAAGCGCTAGAGAATTAACGTTCAAAGTCCTTCACTCATATCTTTAGTGCCAAAAA
TATAGCTTTTCATCACCGAAAACATATCTGACTAATTTTGCTTGAAAAGAGC
>chr4B_437
TTTTGAG-------------------------------------------------------------------------
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------------------------------------------AAAATGTTGATGGCAAAGCTGAACCTTGCCTCAGCACC
AGGCTGTTAACTTTGACTCTTGGCCACATCTTTGTCTAACAAAGC--------TGTATCCCCATTGTCCTTGGCAGGCTC
CTCCGGTCTTATC-----AAGAAAAGAAAAACAGTAGACTACAAAAGCTTAAGCACTTGCTTAAATGAAAAGAAGACCCT
ACCAGCAAAAAAGAAAAAAGAAAAGAAAAGAAGACCCCACTTGGGCAGCCACTTGACAATACAGCCTTTCCCACAAACTC
GGTTTCGGCCACGCGCCTTGATGCACGCGCCATCTCTGCGGCCTCCCGTGTGGCTCCATCGAAGCGATAGCGGCCACACA
AACGTCGCCGCAGCCACGCGGCATCGTTGGTCGCGATTCGCGAAGGGTCGGGAAGCCCGAAACCGGGCGGCCGTGGTGGG
GCTCGGCCGGGAAGGAGCGTGGGAAGACGGCAGATGCGGGGCACCTTTCCCTTCCTTCCCTCTCCGCGTCT---------
-GAGCTGAGCTGTCCCCATGGACGGCGACGCGGCCGGCC----TTATCGCATCCACCCTCCATCCCCGCGATTTTGGGAG
CCTCCATTCCTCTCC--CCCTACTTAACAGCGCCTCCACCCCAACTCAACTCTCCAACTCAACACGCCAAGGCAAAGCAC
CAGTAGTCACACAAGAGAAAAGCAAGAGCAGCAAGCAGCACAGAGCTAGAGAAAAGAGGAGCGTCTCATCGGGAGGAGGA
GAAAGAAAAAGCGAGCGAGGATGTGTGGCGGAGCGATCCTCGCCGAGCTCATCCCGGG---CGCGCCGGCGCGGCGCGCC
ACGTCCGGCCATGGCCACGTCTGGCCGGGCAAGGGCGCCAAGCAGACCAAGGCCGCCGCGGCCGACGACTTCGAGGCCGC
GTTCCGGGAGTTCAACGAGGACTCTGATGTGGAGGACGACGTCGTGATGGTGATGGAGCGGCGGGAGGAGGTGGCCGAGA
GCAAGCCCTTCGTGTTCGCCGCTTCGCCCAAGAAGCAGCAGCAGGAGGAGGAGG---------------AGGCGGCGCCC
GTCCGCCGCAGGAAGCCGGCGCAGTACCGGGGCGTGCGGCGCCGGCCGTGGGGCAAGTGGGCCGCCGAGATCCGCGACCC
CGTCAAGGGCGTCCGCGTCTGGCTCGGCACCTTCCCCTCCGCCGAGGCCGCCGCGCTCGCCTACGACGAAGCCGCGCGCG
CCATCCGCGGGCCCAGGGCCAAGCTCAACTTCTCCTCCTCCTCTGCCGTCGCCGCCGCGGCCCCGGGAGCGCGCAAGCG-
--------CGGCCGCGCCGCGCCCCCCGCTGCCAAGCCAGCGCCGGTCATCACCCTCGTCGACGATGAGGAGGAGCACGC
GTCGTCCTT---CGTCAAGCACGAGGCCGAGGCGAGCGAGGGCTCCGAGTCCAGCGGCGCCCTCCCCGACTTCTCGTGGC
AGGGCATATCGGCGTTCGACGAGGCCCCGGCGTACCCCGCCCCGGAGCCGGAGACCGAGCAGCTGACAAAGCGGGCGAGG
ACGACGGAGGCGGAAGACACCGACGAGGGCATGTCGGCCCACCCGGCATCAGACTCCGACTCCGACGCGCTCTTCGACGC
CCTCCTCTTCGCCGACCAGTTCGCCTTCTTCAACGGCGGCGCCTACGAGTCCCTCGACAGCCTCTTCAGCGCCGACGCCG
TGCAGAGCAGCGCCA------CCGCCACCGCCGTGAACGAGGCGGCCCTGGGGCTCTGGACCTTCGACGACGACTGCCTC
GTCGACGAGTGCAGCCTGTCGTTCTAGATCTT---GTTCCGTGTGCGTCC-GTTCATGTCATGAGATGCGGTGGTGTAAA
TAGAGTAGCTTGCCTTGTGATGAAATCCGTTCGTCCGTCGTCGCTTC---TTGGATCAGCAAGCGATGATGGATTCTGTG
TAAGAGTTTGGCATCGTCGTGAAAGATTTTGCCTACGCCTTCGATGCAAAAGCTCGA---CTTCCGTTTCTGAAATGTTC
TTCAAACAACTCTTCTT--------------------------AACGAAATGTTCAAAATCACGGATCCATCAGGCAGCA
AGTTGCTTGCAGCAGATAGGGTTCCGAAAGAAAGAGTGAAGTGCATCATAGGTTCTTGAACTATTTCAGAGATGTCATGT
AGATCCTTGAACTATAAAAATCGTTATCCAGGTCCTTAAAGTGCAATATGTGTATTATCCTGGTTCTCAAACTATTTCAA
ATGTGTCACATTAGTCCTTAAACTATTTCGGAGATGTCACATATATACACTTATTATATTTTAAGGATTTTTTAGGACCT
AGATGACATTTTTCATAGTTTAAGGACTTATGTGAGACCATTGAAATAGTCCAAGGACCTACGATGCACTTCATTCCGAA
AGAAAAGCAAATGGGATCAACAAAGGTTGCAGGCTTATCCCTGCCCTCCATTAACTTAAGCATCGCACTCGGATCTCCTC
CCTC--------AATGCCGTGCCATATCACAGTGTTGTGACAGGACGGGAACCAAATCCAACAAGAG-CCCATGCCGTGC
AGCTCGTGTTGGTCATTGTCACTTT-GTCATGGACTGAGGGGAGGACGCTCCTCTGTCGTGCGCTACGTGTTGTTGGGTC
ACTGACATGCGGGCCAGGTTCCCAAAAGGCTCACATGTCAGTGACAGAACGGCAGGCTGCCGTACGTCAGAGGATCCTCA
TCCGGACTGAGGTGGAGACAGGAGCAGTGCTTTTGGTTGATCCGGGATGAGCAGTTGGCTGGTGAAGTTTATCTTGCTCG
CCAAACAAGAAATTCATGTGACTCTTTTTCATAAACAATATTTGTAGCTATAAGTAAACCGTGGTAATAACTGCGTTAGA
GCATCTCTAGCCCTTTCCCTGTGATGTTTTAATCCCCTATAAAATTTGTTTTGACCTCATCCAATGAATCTGTGTTTAGG
TGAGGTGCTAAGTGATTGAAAAAATTAGCAATTAAGCTCATCAATACACAGGTGCTTAGTTTTTTAGATAAACTTCTTTT
GTTTAAATTTTTAGC-ACAAAATTTCTTTGTGCGTTGGTTGATAGGAATTTTGCGTACGTCCGGGTCGCTTGACATCCGT
TTCCTTTTGAGGTCATCGAAGTGTTCTCTCCTCGATTGCTTTGCCATATCAGTTTTTT--GCCTACATGATATTCTTAGC
ATATGTACACAGTGAAGCACTAGAAGAGCGCTAGAGAATTAATGTCCACCGTCC------CATATCTTTAGTGCTTAAAA
A---------------------------------------------------
>chr4A_812
TCCCC---------------------------------------------------------------------------
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-------------------------------------------------------CCCTCCATTCCCGCGATCTCGGGAG
CCTCCATTCCTCTCCCCCCCTACTTAACAGCGCCTCCGCCCCACCCCAACTCA-CAACGCAACACGCAACGCAGAGTCCA
GTAGCCGAGAGCAA---------------AGCAAGCATCAGAGAGCGAGAGAAAAGCA-AGGGTAGCATCGGGA-GAGGA
GAAAGGAGAAGCGGGCCAGGATGTGTGGCGGAGCGATCCTCGCCGAGCTCATCCCGGGGGGCGCGCCGGCGCGGCGCGCC
GCGTCC------GGCCACGTCTGGCCGGGCAAGGCC------------------------GCCGACGACTTCGAGGCCGC
GTTCCGGGACTTCAACGAGG------------AGGAGGACGTGGTGGTGGTGGTGG------AGGAGGAGGTGGCCGAGA
GCAAGCCCTTCGTGTTCGCCGCCTCGCCCAAGAAGCCGCAGCAGCAGCGGGAGGAGGAGGAG------CAGGCGGCGCCC
GCCCGCCGGAGGAAGCCGGCGCAGTACCGCGGCGTGCGGCGCCGGCCGTGGGGCAAGTGGGCCGCCGAGATCCGCGACCC
CGTCAAGGGCGTCCGCGTCTGGCTCGGCACCTTCCCCTCCGCCGAGGCCGCCGCGCTCGCCTACGACGGCGCCGCGCGCG
CCATCCGCGGGCCCAGGGCCAAGCTCAACTTCCCTCCCTCCTCTGCCGTCGCCGCCGCGGCCCCGGGATCGCGCAAGCGC
GTCCGCGCAGAAGCCCTCGCGGCCCCCGCCGCCAAGCCGGCGCCGGTCGTCACCCTCGTCGACGACGAGGAGGAGCACGC
GTCGTCCTTGTTCGTCAAGCACGAGGCCGAGCCGAGCGAGGGCTCCGAGTCCAGCGGCGCCCTCCCCGACTTCTCGTGGC
AGGGCATGTCGGCGCTCGACGAGGCCCCGGCGTACCCCGCCCCGGAGCCCGAGACCGAGCAGCTGACAAAGCGGGCGAGG
ACGACGGAGGCGGAGGACATCGACGAGGGCATGTCGGCCCACCCGGCGTCCGACTCCGACTCCGACGCGCTCTTCGACGC
CCTCCTCTTCGCCGACCAGTTCGCCTACTTCAACGGCGGCGCCTACGAGTCCCTGGACAGCCTCTTCAGCGCCGACGCCG
TGCAGAGCGGCGCCACCGCCACCGCCGCCGCCGCGGACGAGGCGGGCCTGGGGCTCTGGAGCTTCGACGACGACTGCCTC
GTCGACGAGTGCAGCCTGTCCTTCTAGATCTTCTTGTTCCGTGTGCGTCCTGTTCATGTCATGTCATGCCATGGTGTAAA
TAGAGTAGCTTGTCTTGTGATGAAATCCGTTCGTTGTTCGTCGCTTCTGCTTGGATCAGCAAGCGACGATGGATTCTGTG
TAAGAGTTTGACATCGTTGTGAAAGATTTTGCCTAGGCCTTCGATGCAAAATCTCGG---CTTCCGTTTCTGAAATGTTC
TT------------------------------------------------------------------------------
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-------------------------------------------CCCTCCATTAACTTGAGCATCGCGCTCGGATCTCCTC
CCTCAATGGCTCAATGCCGTGCCATGTCGCAGTGTTGTGACAGGACGGGAACC-AATCCAGCAAGAGCCCCATGCCGTGC
AGCTCGTGTTGGTCACTGTCACTTTTGTCATCGACGGAT-----------------------------------------
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---GGACTGAGGTGAGGACATGAGCAGTGCTTTTGATTGATCCGGGGTCAACAGTTGGCTGGTGAAG-------------
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>SNPs
S-S-SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS--------S----------------S---S-S-S----
-S---------------S-----------S-----S-SSSS--SSSSSSSSSS-----------S---------S-----
-------------SSSSS---------------------------------------------------S-----S---S
--SS-S--------------------------------------------------------------------------
--SSS--S---SSS-SSS-SS-----------------------------------------------------------
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----------------------------------------------------------------------SSSSSSSSSS
S----------------S-----------------S---SSSS-----------S---S---------------------
--S-----------------------------------------------------------------------------
S-SS-----SSS---------S----------S-S---SS-SSS-S-S--S--SSSS--SSSSSSSSSSSSSSS------
------S----S----------------------------------------------------------S--S------
-----------S--------------S--------------------S--------S-----------------------
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-----------------------------------S--------------S-----------SSSSSS------------
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S--------------------------------------------S-----------------------S----------
-------------------------------------------S--------------------------S--------S
-S--------------S--------------------------S---------------------S--------------
------------------------------S-------------------------------------------------
-----S----------------------------------------------------------SS-S------------
-----------S------S------------------------S-----------S---------------S--------
S-------------------------------------------------------------------------------
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-----------------------------------------S---------------------S----------------
--------------------SS----------------------------------------------------------
---------------------------------------------------------SSS----S---S-----------
------S----------SSSSSSSSSSSSSSSSSSSSSSSSSS---------------S---------------------
-------------S---S-------SS-----------------------------------------------------
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------------------------S--------S----------------------------------------------
-S--------------------------------------------S---S------------------S----S-----
-----------------------------------SS-------------------------------------------
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------------S-----------------------------------------------------------------S-
---S----------------------------------------------------------------S-----------
----------S---------------S--------------S---S-------S----S------SS--SS--------S
-------S---------------S--------------SS-----S--S---S----------------------SS--S
------S-S------S------SS---------S-------------------SS-------------------------
---S----S------S-S--S-----S------S------------------------SS-----S---S----------
-S--------SS-------------S----------------S--S--SS----SSSSSS--------------SS----
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
>forward_574
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--------------------------------------------------------------------------TGGCTC
CTCCGGTCTTATCA------------------------------------------------------------------
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>reverse_2539
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----------------------------------------------------------TTCACGGATCCATCAGGCAG--
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