>input_sequence_58702
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----ATGCATCTCCACGGCAAAAGGCGACCGGCATCACTCTCCACCACCACCACCAT----CACCGCAAGCATCCGTTCG
TTCATCGGGTTTGTTGTTTGGGAGGTCGAGAAGGAGGTGCCGGCAGCAGCCATGGACCGGGCCATCAACCGCACCTACGA
GGAGTACACCCCCGTCGTCGAGTGGAGCCACTCCGCCGACGCCAGCTTCGTCAAGATCATCGTCCCAGGCATGCA-----
----TGCAACTCACATCGTATGGTTAGTC--GAGCAAACAATGGCGGGTGTGTGATGGGTGAT---------------GG
GTTCTTGGCTGCTGCAGGGTTCAAGAGGGAGGAGATCAGGGTGCTGGTGGACAACCACGGCCACCTGCGCACGCGCGGCG
AGCGGCCGGTGGAGGGCGGCAGGTGGAGCCGCTTCCAGAAGGACCTGCAGCTCCCCTCCGACTGCAACGTCGACGGCATC
CGCGCCAAGTTCGAGAACGAGGCGCTCACCATCACGCTCCCCAAGAAGCACCCTTCGCCCCCGCAGCAGCAGGCCGCGCC
GGTGGCC---CCGGTGATGCCGATGCCGGCGCCCGCGCCGGCGACCCCCAAGCCCGAGCCCAGGAGGCCCTACGCGGCGC
CGTCCCAGAAGCCGCCGCCGGCGCTCCCCGAGCCCGCCAGGCCGGCCGCCACGGCGCCGCCCCCCGTCGTCCCTTCCCAG
AATCCCTTCGCTGACCGCAGGCCCTCGCTGGCCCGGAAGCCAGCGGACATTCCCGCGCCGGTAAGGCCCGCGCCACCCGT
GC------------CGGAGCCGGAGTCCCCGAAGAGGCACAACGGAGCCGCTGCCACCGCGAGGCCCGAGCTGCCCGCCT
TCCCGAAGCCGACGGGGGAGTGGGTGAGGGAGGAGGCCAAGAAGCCGCAAGAGGAGGCCAT------------------G
GCGGCCGAGGAGGAGGAGAAGCGGAGGATGGAGAGGGAGGCGAGAGGGAAGATGGAGGAGGACAGGAAGATGGCGGAGGC
GGACAAGGAGACGGAGAGGATGATGGACATGGCGCGGCGGAGGAGGGCCGCGCCCGCCAACCGCGGGCTGCTGCTGAACG
TGGCCGTGGCGGCGCTGGTGCTCGTCGGGATCACGGTGTACGTGTGGCGCAACCTCAGCGCCGCTGCCTCCGGCGG---C
GGGGATGCCGGAGCGGGGAGCTACGGCGACGAGATGTGA-----------------------------------------
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>chr4A_1_TraesCS4A01G298600
CCTCTTGGTGTGCGTCCATCATCGGCTGGGAACCATCATCTCAGCAGTAATCTGTATGCATTTTTACTGACGATTCATAG
TTGAACGATGGTCGGGGTTTCTGACAAGCAAAGATATTCAGAGCATACTGCGAACAATTTCACTGTACTAAAG--TTTGA
TGCTGAGTCGGGTATTGTACCTTGAGTCT----ACTTGTGGTGAGTCGTGC-GACATTGTTTTGCTTTTGTATCAAAAAT
TGTTTCAGTTGTGACACTTCACTGATCCCAACTGTTTGACATGCGTGCTCGTTGATGCATATGCTGTCTCTTTTTTTTTT
GCTGAATCAGATAAAGCGCTTTATGCAACAGTGAAACAAGAGCAGCAGACACACATCACCTGCTTGCTAAGCTG---TAG
CATCAAGCAAAAACTTTGTGCAAATATGGGTACATTGCCATTGTCTAGGAT-----GAATGATCGCAATTCGACGAGATT
CACAAATTAGAATCAACCTCAAGAACCCGACCAAATTGACAAGTTAGAATCTCAAGAA-CCCAAAGATCACCTGAATAAC
AGAGAAACCACTCATATGCAAGCAGACATTTGAAAAATCCGCGAATTCGCGGATTCAAAGACAGGCAT-ATCAAAATTTG
AAAAGTTCGAATAGCGGATCGAATCGCGCGCATGGTCCTAAATAATACCTACCCTATTATACACTCATGACTCATCA---
ATCAATCAAGAAAGAAAAAGAGCAAAACCC-CACCCAATATACTTCCCTTGAGGCTTGGGCCAACCTCTGCTGCAAATCC
ACATGGACATGGATTTTCTTCCCCCCACACCCCGGCCGAAAACCAAGCAAGGAATAATACTTCACTTTGCTGGGGGTTTG
CGTCGCCGT------------CGCCGACGCCGGGAGAAACACCAGTCGATGGAGAAAAACATCACTTGTCCGCCAAGCCA
AGCCATGTCCGATCCTTCTTC----CAAGAATCTATTCTTCCCCTCCTCCTCT---TCCT----CTCATGGCTCCTGACT
ATATATGCATCTCCACGGCAAAAGGCGACCGGCATCACTCTCCACCACCACCACCAT----CACCGCAAGCATCCGTTCG
TTCATCGGGTTTGTTGTTTGGGAGGTCGAGAAGGAGGTGCCGGCAGCAGCCATGGACCGGGCCATCAACCGCACCTACGA
GGAGTACACCCCCGTCGTCGAGTGGAGCCACTCCGCCGACGCCAGCTTCGTCAAGATCATCGTCCCAGGCATGCA-----
----TGCAACTCACATCGTATGGTTAGTC--GAGCAAACAATGGCGGGTGTGTGATGGGTGAT---------------GG
GTTCTTGGCTGCTGCAGGGTTCAAGAGGGAGGAGATCAGGGTGCTGGTGGACAACCACGGCCACCTGCGCACGCGCGGCG
AGCGGCCGGTGGAGGGCGGCAGGTGGAGCCGCTTCCAGAAGGACCTGCAGCTCCCCTCCGACTGCAACGTCGACGGCATC
CGCGCCAAGTTCGAGAACGAGGCGCTCACCATCACGCTCCCCAAGAAGCACCCTTCGCCCCCGCAGCAGCAGGCCGCGCC
GGTGGCC---CCGGTGATGCCGATGCCGGCGCCCGCGCCGGCGACCCCCAAGCCCGAGCCCAGGAGGCCCTACGCGGCGC
CGTCCCAGAAGCCGCCGCCGGCGCTCCCCGAGCCCGCCAGGCCGGCCGCCACGGCGCCGCCCCCCGTCGTCCCTTCCCAG
AATCCCTTCGCTGACCGCAGGCCCTCGCTGGCCCGGAAGCCAGCGGACATTCCCGCGCCGGTAAGGCCCGCGCCACCCGT
GC------------CGGAGCCGGAGTCCCCGAAGAGGCACAACGGAGCCGCTGCCACCGCGAGGCCCGAGCTGCCCGCCT
TCCCGAAGCCGACGGGGGAGTGGGTGAGGGAGGAGGCCAAGAAGCCGCAAGAGGAGGCCAT------------------G
GCGGCCGAGGAGGAGGAGAAGCGGAGGATGGAGAGGGAGGCGAGAGGGAAGATGGAGGAGGACAGGAAGATGGCGGAGGC
GGACAAGGAGACGGAGAGGATGATGGACATGGCGCGGCGGAGGAGGGCCGCGCCCGCCAACCGCGGGCTGCTGCTGAACG
TGGCCGTGGCGGCGCTGGTGCTCGTCGGGATCACGGTGTACGTGTGGCGCAACCTCAGCGCCGCTGCCTCCGGCGG---C
GGGGATGCCGGAGCGGGGAGCTACGGCGACGAGATGTGAACTGTGATCGATCGGGC---AGCAGGTGCCAGGTGGTGCGA
AGTATCT----GAAGCGTGAGAGTGA--------GTGAAAGTTCATACGTGTGGGAAGGTGGTCGCGAATGGAGGCTCTG
AAGAAAAATGGAAGTATATATTCCCGCGAAAAAAATGCAAGTATATATGTGTGTGTATCGTGGTTTGTTACAGATTACAG
AGACATGGTTGGTTGATCAAACTTGATGAAATAAAATGTTATGCACAA----GCCTTTAACTTTCTAGT-ATAAGTTCTT
GATCGCGTCGAGGTTAATTTGTTCTACAAGCATGTATGTGTATGACTCAATTACTCTTTGCGCATGCAGACTGCAAATTT
AAACTTTCAGAATAACAAATATATGTGGTATAGAAGTATATTGAATGATGGTTCTAATGGTATTAATTCGGTAATGCAAA
TGTCAACAATC-TTTTGCATAAACTTGACCAAAGTTTACAAAGTTTAGCTCGATGCAAAGCTAATATGCGAAGTAAATAA
AAATGAAGAGAGTACGTTCAATAACACTAGCGTTTATGGGAGAACATTTGCGTACTTGATTAGCTTTTACTGAGAAAGTA
GGTGCACATTAGACTTAACATTGAAAATGCTTGTGTAAGTTTGCATCTGTAGAGCAAAAACTAGCAACGAGTAGTGAAGA
AAAAAGTGACGTGCATGAAAAAAGAAATCCAGGCGACTAACAAATAGGCAATCCTGTTATTTTCACAAACCTTTGATGAT
AATCGTAATCCCCATCAATTAGAATGGGATTCACACTAATGTAAAAAGGGAGGAATTCGCATCG-CCAAGAAACCTACAT
GTGCGGGAAGGGGGCCAGGGTCTCGCCGTTGCTCTCATTGATTCCATGCCTGACTGTGGTGAGTGGTGGTTCAATTCGGC
AGATTTGGGACAGAAGTTAGAGGAGCAAGGCGAGCATTTCAGCTCTTTGGGACAGAGGTTCCTCCATTCTTTCTTATGTT
CATGTGCTTTCCTCCATCATT
>chr4D_1
CCTCTTGGTGCACGTCCATCATCGGCCAGGACTCG-------AGCAGTAATCTGTATGCATTTT-ACTGACGATTCATAG
TTGGACGATGGTCGGGGTTTCTGACTAGCAAGGATATTCAGAGCATACTGCGGACAATTTCACTGTACTAAAGGATACGG
TGCCGAGTCCGGTGTTGTACCTTGAGTCTGTCTACTTGTGGTAGAGCGTGTTGACATTGTTTTGCTTTTGTATCAAAAAT
TGTTTCAGTTGTGACACTTTACTGATCCCAACTGTTTGACATGCGTGCTCGTTCATGCATAGGA-----CTCTTTGTTTC
GCTGAATCTGATAAAGCGCTTTATGCTACAGTGAAACAAGAGCAGCCGGCACACATTACTTGCT----AAGATGTACTAG
CACTAAGCATGAACTTTGTGCAAATATCGGTACACCGCCATTGCCTAGGAT-----GAATGATCGCAATTCGACAAGATT
CACAAGTTAGAATCAACCTCAAGAACCCGACCAAATCGACAAATTAGAATCTCAGGAA-CCCCAAGATCACCTGAAGAAC
AGAGAAACCACTCATACGCAAGCATGCATTTGAAGTATCTGCGAATTCGCCAACTCAAAGATAGGCAACATCAAAATTTG
AAAAGTTCGAATAGCAGGTCAAATCGT--GCATGGTCGAAAATTATACCTACCCCATTATACACTCAA-------CA---
CTCAATCAAGAAAGAAAAAGAGAGAAACCCACCCAATATATGCTTCCCTTGAGGCTTGGACCAACCTCTGCTGCAAATCC
AC------ATGGATTTTCC-----CCA-ACCCCGGCCGAAAACCAAGCAAGGAATAATACTTCACTTTGTTGGGGGTTTG
CGTCGCCGA--------------CCGACGCCGGGAGAAACACCAACGAGCAGAGGAAAATATCACTTGCCCGCCAAGCCA
AGCCATGTCTCA-------TCCTTCCAAGAATCTATTCTTCTCCTCCTCCTCCTCCTCTCATGGCTCCTGAGTCCTGACT
ATATATACATCTCCACGGCAAAAGGCGACCGGCATCACTCACCACCACCGCCATCAC----CATCACCGCAAGCA-TTCG
TTCATCGGGTTTGTTGTTTGGGAGATCGAGAAGGAGGTGCCGGCAGCAGCCATGGACAGGGCCATCAACCGCACCTACGA
GGAGTACACCCCCGTCGTCGAGTGGAGCCACTCCGCCGACGCCAGCTTCGTCAAGATCACCGTCCCAGGCAAGCAACCAT
TATCCATGAACTGATTACGATGCATGCAGATGCAGGCGCTGATGAGGGTT-----------------------------G
GTTCTTG---GCTACAGGGTTCAAGAGGGAGGAGATCCGGGTGCTGGTGGACAACCACGGGCACCTGCGCACGCGCGGCG
AGCGGCCGGTGGAGGGCGGCAGGTGGAGCCGCTTCCAGAAGGACCTGCAGCTCCCCTCCGACTGCAACGTCGACGGCATC
CGCGCCAAGTTCGAGAACGAGGCGCTCACCATCACGCTCCCCAAGAAGCACCCTTCGCCCCCGCAGCAG---GCCGTGCC
CGTGCCG---CCGGTGATGCCGGCGCCG------GCGCCGGCGACGCCCAAGCCCGAGCCCAGGAGGCCCTACGTGGCGC
CGTCCCAGAAGCCGCCGGCGGCGTTCCCCGAGCCCGCGAGGCCGGCCGCCACGGCGCCGCCCCCTGTCGTTCCTTCTCAG
AAGCCCTTCGCTGACCGCAGGCCCTCGCTGCCCCGGAAGTCGGCGGACATTCCCGCGCCGGCAAGGCCGGCACCTCCCGT
GCCCGCACCGGCGCCGGAGGAGGAGACCCTGAACAAGCACAACGGAGCCGC---------GAGGCCCGAGCTGCCCGCCT
TCCCGAAGCCGACCGGGGAGTGGGTGAGGGAGGAGGCCAAGAAGCCGCAAGAGGAGGCCATGGCGAGGAAGCCGCAGGAG
GCGGCCGAGGAGGAGGAGAAGCGGAGGATGGAGAGGGAGGCGAGAGGGAAGATGGAGGAGGACAGGAAGATGGCGGAGGA
GAG---GGAGACGGAGAGGATGATGGACATGGCGCGGCGGAGGAGGCCCGCGCCCGCCAACCGCGGGCTGCTGGTGAACG
TGGCGGTGGCGGCGCTGGTGCTCGTCGGGATCACGGTGTACGTGTGGCGCAACCTGAGCGCCGCTGCCTCCGGCGG---C
GGGGACGCCGGAGCCGGGAGCTACGGCGACGAGATGTGAACTGTGATCGATCGACATCGAGCATGCAGCAGCTGGTGCGA
AGCATTT----GAGGCGTGAGACGAGACGGCTGGGTGAAAGTTCATGCGTGTGGGCAGGTGGTGGTCAATGGAGACA---
------------------------------------------------------------TGGTTTGTTACAGATTACAG
AGACATGGTTGCTCGATCAAACTTGATGAAATAAAATGTTATGCACGTACGCGCCTTTAATTTTCTACTGATATGTTCTT
GAACGCGTCGAGGTTGATTTGTTCTACAAGCACGTAGGAGTATGACTTTAAAACTCTTTACGCATGCAGACTACAAATTT
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>chr4B_1
CCTCTTGGTGTACGTCCATCATCGCC-GGGAACTATCATTTTTGCAGTAATCTGTATACATTTT-ACTGACGATTCATAG
TTG--------------------------AACGATGTTCAGAGCATGCTGCGAACAATTTCACTGTACTAAAGGATTCGA
TGCTGAGTCGGGTGTTGTACCTTGAGTCT----ACTTAGTTCAGAGCGTG-TGACATCGTTTTGCTTTTGTATCAAAAAT
TGTTTCAGTTGTGACACTTTACTGATCCCAACTGTTTGACATGCGTGCTCATCGATGCATATGCTG----TCTTTCTTTT
GCTGAATCAGATGAAGCGCTTTATGCTACAGTGAAACAAGAGCAGCAGGCACACATAGCCTACTTGCTAAGATGTACTAG
CATTAAGCATAAACTTTGTGCAGATATCGGTACATCA-CATTGCCTAGAATGAACGGAACGGTCGCAAACCGACGAAGTC
GACAAGTTAGAACCAGACCCAAGAGCC--------TCGACAAATTAAAATCTCAAGAACCCCAAAGATCACCTGAAGAAC
AGAGAAATCACTCATACG-------ACATTTGAAAAATCTGCGAATTCGCCGGTTCAAAGATAGGCGT-GTCAAAATTTG
AAAAGT-CGAATAGCAGATCGAATCGC--GCTTGGTCCTAAATAATACCTACCCTGTTACACACTCAT-------CATCA
ATCAAGCAAGAAACAAAAAGAGAGAAACCCACACCCAATATGCTTCTCTTGAGGCATGGACCAGCCCCTCCTGCAAACCC
ACATGGACATGGATTTTCT-----CCATACCCCGGCCGAAAACCAAGCAAGGAATAATACTTCACTTTGCTGGGGGTTTG
CGTCGCCGTCGCGGACGCCGACGCCGACGCCGGGAGAAACACCAATCGATGGAGAAAAACATCACTTGTCCGCCAAGCCA
AGCCATGTCCGATCCTTCTTCCTTCCAAGAATCTATTCTTCTCCTCCTCCTCCTCCTCCT----CTCATGGCTCCTGACT
ATATATACATCTCCACGGCAAAAGGCGACCGGCATCACTCACCACCACCATCACCATCGATCATCACCGCAAGCA-TTCG
TTCATCGGGTTTGTTGTTTGGGAGATCGAGAAGGAGGTGCCG---GCAGCCATGGACAGGGCCATCAACCGCACCTACGA
GGAGTACACCCCCGCCGTCGAGTGGAGCCACTCCGCCGACGCCAGCTTCGTCAAGATCATCGTCCCAGGCAAGCAAACCA
TCCATGCGGCTCACACCATATGGTTACTGATGAGCCAACAATGGCGGGGGTGTGTGATGGGTGTGGCCTGACTCTTGAGG
GTTCTTG---GCTGCAGGGTTTAAGAGGGAGGAGATCAGGGTGCTGGTGGACAACCACGGCCACCTGCGGACGCGCGGCG
AGCGGCCGGTGGAGGGCGGCAGGTGGAGCCGCTTCCAGAAGGACCTGCAGCTCCCCTCCGACTGCAACGTCGACGGCATC
CGCGCCAAGTTCGAGAACGAGGCGCTCACCATCACGCTCCCCAAGAAGCACCCTTCGCCCCCGCAGCAGCAGGCCGCGCC
CGTGCCCATGCCGGCTCTGCCGGTGCCGGCGCCCAAGCCCGT---------GCCCGAGCCCAGGAGGCCCTACGCGGCGC
CGTCCCAGAAGCCGCCGCCGGCGCTCCCGGAGCCCGCGAGGCCGGCCGCCACGGCGCCGCCCCCCGTCGTCCCTTCCCAG
AAGCCCTTCGCCGACCGCAGGCCGTCGCTGCCCCGCAAGCCGGCGGACATTCCCGCGCCGGCAAGGCCCGCGCCTCCCGT
GCCCGCGCCGGCGCCGGAGTTGGAGACCCTGAACAAGCACAATGGAGCCGCTGCCACCGCGAAGCCCGGGCTGCCCGCCT
TCCCGAAGCCGACGGGGGAGTGGGTGAGGGAGGAGGCCAAGAAGCCGCAAGAGGAGGCCATGGCGAGGAAACAGCAAGAC
GCGGCCGAGGAGGAGGAGAAGAAGCGGATGGAGAGGGAGGCGAGAGGGAAGATGGAGGAGGACAGGAAGACGGCGGAGGC
GGACAAGGAGACGGAGGGGATGATGGACATGGCGCGGCGGAGGAGGCCCGCGCCCGCCAACCGCGGGCTGCTGGTGAACG
TGGCCGTGGCGGCGCTGGTGCTCGTCGGCATCACGGTGTACGTGTGGCGCAACCTGAGCGCCGCTGCCTCCGGCGGGGGC
GGGGATGCCGGCGCCGGGAGCTACGGCGACGAGATGTGATCGATCG----------------ATCGAACAGTTGGCGCGA
AGTATATATTCGAGGCGTGGGAACGA--------GTGAGAGTTCATACGTGT----------------------------
-------------------------------AAAATGCAAGTATATATATGTATGTATTGTGGCTTGTTACAGATTACAG
AGCCATGGTGGGTTGATCAAACTTGATGAAATAAAATGTGATGCACAA----GCCTTTAACTTTCTA-T-ATATGTTCTT
GAACGCGTCGAGGTTAATTTGTTCTACAAGCATGTATGTGTATGACTTGGTTACTCCTTGCGCATGCAGACTGCAAATTT
AAACTTTGACAATGACAAATATGCATGGTATAAAAGTATATTGAAGGATGATTCTAATGGTATTGATTCGGTATTGTGAG
TGTCAATAACTTTTTTGCATAAACTTGACAAAAGCTTATAAAGTTTGGCTCGATACAAAGCAAATATGCAAAGTAAATAA
AATGGAGGG-------------------------------------------------------------------AGTA
GATACACGTTAGACTTAACGTTGAAAAGGCTTGTGTAGGTTTGCATCTGTGGAGCAAAAACTAGCAACGAGTAGTTAAGA
AAAAAGTGACTTGCATGAAAAAGAT-ATCCAGGCGACTAACAAATAGGCAATCCCATTATTTTCGCAAACTTTTGATGAT
GATCGTAATTCCTG----------------TCACACTACTGTAAAAAGGGTGGAATTCACATCGACCATGAAACCTACAT
GTGCAGGAAGGGGGTCAAGGTCTCGTCGTTGCTCTCGTTGAGTCCATGCTTGATTGTGGTGAGTGATGGTTCAATTCGAC
AGATTTGGGAGAGAAGTTGGAGGAGCAAGGCCAGCATTTCAGCTCTTTGGGACAGAGGTTCCTCCATCCTTTCTTATGTT
CATGTGCTTTCCTCCATCATT
>SNPs
-----------S--------------S------------S-S----------------------S---------------
---S---------------------S-----S---------------------------------------------S--
-------------S----------------------------SSSS----S-----------------------------
-------------------S----------------------------------------------SSS--S---S----
--------------------------S---------------------S-------S--------------S--------
---S-----S-----------------S-------S-------S------------------------------------
-----S------------------------------S-----S---------------------------------S---
----------------S-------S--------------S----------S----------S------------------
---------------S-----------SS---------------------------------------SSSSSSS-----
----------------------SS-----------------S-----------------S--------------------
-------------------SSSSS---S----------------------------------------------------
--------------------------------------------S-----------------------------------
-----------------------------------------S----------S---------------------------
------S---------------------------------S----------------------S-S-SSSS-S-SS----
------------------------S--------------------------------S----------------------
-----------------------------------------------------------------------S--------
-------S---------S--------S-S------S------------------SSSS-S-SS-----------------
-------SSS----------------------------------------------------------------------
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S---S-----------------S----------------------S----------------------------------
-------------------------------------S------------------------------------------
--S---------------------------S----------S-------------------S------------S-----
-------------------SS----S---S---S-S--------------------------------------------
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----------------------------------------------S--------------------------S------
-------------------------------------------------------S------------------------
--------------S--------------------------------------SSS-------S-SSS---S--------
-----S-------S--------SS-------------------------------S-------S-SS-------S-SSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS-----------------S---S-----S---------------------
-------------------------------------------------------------------S-----S------
--S--------------------------------------------SS-------------------------------
-------S-S---S--------SSS-------S------------S----S-------------S--------S--SS-S
------S--SS------------------S----S---S-------S-------S------S-------S----------
--SS--S-SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS----
-S-S---S-----------S-------S---------S------------S------------------------S----
----------S-----------SSSS----------------------------SS--------S-----S---------
S--------S--SSSSSSSSSSSSSSSSSS--------S-----------S-------S---------S-----------
----S---------S--S-------S----------S----S-------S---S-----------S------------S-
----------S-------S------------S-----------------------------------S------------
---------------------
>forward_780
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----------------------------------------TACTTCCCTTGAGGCTTGGG--------------------
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>reverse_2554
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-------------------------------------------------------------------------AGTTCTT
GATCGCGTCGAGG-------------------------------------------------------------------
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