>input_sequence_78265
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----ATGTCGTTGGTGAGGTTCTTCGACACGCTGGCCCTGGACTCGTGGAACCCCTTCGGCAGCATCTTCGGCACCACGG
CGTCCAGCGGCACCGACGCCTGGCTGGCCAGCGACACGACGGCGTTCGCCGACACCTACATCGAGAGCCGGGAGACGGCG
GAGGCCTACGTGTTCAGCGCCAGGCTCCCCGCGGGCGTCACCAAGGAGGAGGTCAAGGTGGAGGTGGAGGAGGAGGGCAA
GGTGCTGGTCATCGCCGGCGAGCGGAACCTGCGGAGGGAGGCCAAGAGCGAGACGCGCCACCACGTCGAGCGCAGCGTCG
CCACCTTCTTCGGCAGGTTCCACCTCCCCGACGACGCCGCCCTGGGCCAGGTCAGGGCCGCCATGGACGACGGCGGCGCG
CAGCTCATCGTCACAGTGCCCAGGGCCGGCGTCGCCGTTGCTGCCGTGACCATGCCCGAGCCGGCCGTGGCCATCGAGGT
CGGCGAGGCCAGCCCGTGCTGA----------------------------------------------------------
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>chr3A_1_TraesCS3A01G035400
CGCACAAGCTTTGAATTTGATACGGCGCAAAGAATTAATGAGAAGCCCTCCCTTTTCCAAACGTAACAAGAACATGGACG
ACTCACCAAATGTAACAGGAAGCAAGATTAAGCTATGTGACCTGTGCGTATGTAACATCACTAGCTAAAAGAATGCTTGC
CTTCACAATCCTAG------------------------------------------------------------------
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-----------------------------------------------CTAGAGGCTAGAATCTTGCGTGGAACCACTAAA
GAATACGCAGGCCACACC---AAGAGGTACCACTGTTGAGCCATCGTTACCTCAACGTC---------------------
--------------------C----------------TACACATACGTGGCCGGCCTTGCGCACGACGCGATCTTTCTCG
TCGGCGAC--------------------------ACAACGT----GTGAGTGAGAAAGAGTGTGAACGGATCGCGCATCG
AGCCCTTAACTCGACGACGTCGACCGTGGGG----CATGTTGCCCCACACCGTGGCGAGCGAATCCTGT-----------
GCACGGCGGCTAGCTCCCGATCGGTCGCGAAGCCTAGCTAGCATCCGTAGCGAGGTGACGAGGATATGCCAACAAATTTG
GGCGACGTCGCGATCGGACTGGCCCGG-AAAAGTTGTGCCGGCTGCCGGGGAGGGACCGTTTGTAACTCAA--TTTTT-T
AGTTTCACGTGCG-ATATATTTTGGCGTAAAATGGTCCTGT---------------------------AAAGTAGTATTT
TTTTGGATATTTTTCGATGCATTTTTTAGGTGCATCGGGTCGGCTTTCACCGTTGCTCGGATTTCTCGTGTGTGCTTTCG
TGATCGT-------------CCCATATGAGTCCATGCGCAAACCAACGAAACTGGCCGGCTCACTTCACATTACTCCCGC
AAGC-GCAAGGACAACTCAAGCTACAGAGACAGCTGCGGGTCCGCAGGAAGGCGCAAGGCAGGTTGGTGGCTG-----GT
GTATACTTTCGTCGTCCATATATAGCCGCTGCCTCGCCATTAGCCAGCTCCAAGCATTCACAAAACGAAACGAGCTAGCT
-AGCCAGCA-------------TTTGGTAGTACACAAGCTACATACATATCCCCAAGCAGGGCTAGCTAAACCGATCTA-
GAGGATGTCGTTGGTGAGGTTCTTCGACACGCTGGCCCTGGACTCGTGGAACCCCTTCGGCAGCATCTTCGGCACCACGG
CGTCCAGCGGCACCGACGCCTGGCTGGCCAGCGACACGACGGCGTTCGCCGACACCTACATCGAGAGCCGGGAGACGGCG
GAGGCCTACGTGTTCAGCGCCAGGCTCCCCGCGGGCGTCACCAAGGAGGAGGTCAAGGTGGAGGTGGAGGAGGAGGGCAA
GGTGCTGGTCATCGCCGGCGAGCGGAACCTGCGGAGGGAGGCCAAGAGCGAGACGCGCCACCACGTCGAGCGCAGCGTCG
CCACCTTCTTCGGCAGGTTCCACCTCCCCGACGACGCCGCCCTGGGCCAGGTCAGGGCCGCCATGGACGACGGCGGCGCG
CAGCTCATCGTCACAGTGCCCAGGGCCGGCGTCGCCGTTGCTGCCGTGACCATGCCCGAGCCGGCCGTGGCCATCGAGGT
CGGCGAGGCCAGCCCGTGCTGATTGCGACGTATGCCG--------------------------GTGCAGACGTGCGAGCG
GTAAGTTGCCTTGCCGCTTGTATGATCTGCTCGATCGGTTCCCCTGGGTGTGATTCCACAAATTGTGGTGTTCGATGTAC
GTAACTACAGTACGTACTTGAGTCTGTCTATGGCTTGCTGCTGTGGTGACTTGTGAGTGAGGTGCTTGCATGTTTGCCTG
TACTGTTACTTGTTAGTTCTGGTGTTCACGCTCAAATTAATGAAGTGTTCACAAAGTATTCGCTAATTAACTGTACTCGT
TGAAACATGAGACCACCTCTGCATCAAGCCTGCCTAAAAAAACATATGCATCATGCCATCAAGCGCATGATTTATTTTAT
TTCTGTCGATTCGCCCAAACCGTACTATTTCGATCTATTCGTAGTCTATTTATAATCTATCATGGCAGTTAAAAATGCAT
TAGAAGTGACAAAAATATAACAGTGTTCATGGTCATGGACCACCTAGAAACAACTAAACCAGTGGAGCGAGTCAAAGGCA
TGACATCGT--CATCACCCCTTCTTCACCAGAGCCGACCAAACCTTATCATCATAGACAATCGAGAAGTTTTCATATTAA
GGTCTCATAGGACCAGCGTATTAAAACAACAGCCAACACCGACAAAGAGAAAAATAGATTGAAATGATCAAACATATAGA
CAC-----ACAAACAAAGACGATGGACAGCCGAATCAAGATGGATCCACCGAAGACGAACAAAGACTGGATTCAAACAGA
TCCACCAAAGACCAGCACCGAACAAATCCTGAGATTTATCGAAGACACGCCTCGGTGGTGCTAGACGACCCGTCGGGACG
GGGCTAGGACGTAAGGACATTATTCCATCTACAGGGAGGTGTTGCTGCCTCGTCTTCCTAAACAGGACACAAATCCTAAC
CGAAATCAAAACATTAACTAAAA-AAGGAGCACGATCCTTCCCACAGATAAGGGCTGGAGTCCATCACGCCTTCATGGCC
CTAAGGCCACAGAAGA
>chr3A_170
CCT-----------------------------------------------------------------------------
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------------AG------------------------------------------------------------------
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-----------------------------------------------CCAAAGGCTAGAATCTTGCGTAGAACCACTAAG
CAATACGCAGAGCACACC---AAGAAGTACAACTGTTGAGCCATCGTTACCTCAACGTCGATCGAGATTACAACAGAG--
--GCTGATCAATTAAGGGTAC----------------TATACATACGTGGCCGTCCTCGGAGACGAATCGATCTG-CTTG
TCGATGACAC--------------------ACCAACAACGTGTGAGTGAGTGAGAAAGAGTGTGAACGGATTACACGTCC
AGGCCATAACTCGACGACGTCGACCGCGCGAGCGACACGTTGCCCCACACCCGTGACGAGTCA--------------TGC
GCACGGCGGCTAGCTCCCGATCGGTCGCGAAGCTAGC----------TAGCGAGGTGACGAGGATATGCCAACAAAT---
--------------------GGTCCGG-AAAAGTTGTGCAC-------GGGAGGGACCGTTTGTAACCCAT--TTTTTGT
TGCTTCACGTGCGAATTTTTTTTTGCGTAAAATGGCGCTGT---------------------------AAAGTG-----T
TTTTGGATAGTTTTTAATGTGTTTTTTAGGTGCATCGGGTCTGCTTTCACCGTTGCTCG-ATTTC------------TCG
TGTGTGCTTTCGTGATCGTCCCCATATGAGTCCATGCACAAAGCAACGAAATTGACCC-----CTTCACACCACTGGCGC
AAGCAGCAAGGACAACTCAAGCTACAGAGACAGGTGCAGCTCCGCAGGAAGGCGCAAGGCAGCAAGTAGGTAGCTGGTGT
CTATGCTTTCGTCGTCCATAAATATCCGGGGCCTCGCCATTAGCCAGCTCCAAGCAAGCACTCAGAGATACCTATTTTCC
AAGCTAGCA-------------TTTCGTACAC----ACATAGGTACACATATTTCCAAGCTAAACG------------A-
GAGGATGTCGTTGGTGAGGTTCTTCGACACGCTGGCCCTGGACTCGTGGAACCCCTTCGGCAGCATCTTCTGCACCACGG
CGTCCAGCGGCACCGACGCCTGGCTGGCCAGCGACACCACGGCCTTCGCCGACACCTACATCGAAAGCCGGGAGACGGCG
GAGGCCTACGTGTTCAGCGCCAGGCTCCCCGCCGGGGTCACCAAGGAGGAGGTCAAGGTGGAGGTGGAGGAGGACGGCAA
GGTGCTGGTCATCGCCGGCGAGCGGTGCCTGCGGAGGGAGGCCAAGAGCGAGATGCGCCACCACGTCGAGCGCAGCAGCG
CCACCTTCTTCGGCAGGTTCTACCTCCCCGACGACGCCGCGTTGGGCCAGGTCAGGGCCTCCATGGACGACGGCGGTGCG
CAGCTCACCGTCACCGTGCCCAGGGTCGGCGCCGCCGTCC---CCGTGAGCATGCCCGAGCCGGCAGTGGCCATCGAGGT
CGTCGAGGCCTGCCCGTGCTGATCGCGA----------------------------------------------------
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>chr3B_170
CGTACTATACATACGTGGCCGTCCTTGGAGACGACGCGCGATCTGCCTGTCGATGACACACCAACAACGTGTGCGTGAGA
ACGAGTGTGAACGGATCGTCGTCGAGCCCTTAACTCGACGACGTCGACCGTGCGACACGTTGCCCCACACCCGTGACGAG
TCATGCGTACGGCGGCTAGCTCCCGGTGAGTTGCGAAGCCTAGCTAGCATCCGTAGCGAGGTGACGAGGATATGCGAACA
AATTTGGGCGACGTCGCGATCGGACTGGCCCGGAAAAGTTGTGCCGGCTGCCGGGGAGGGACCGTTTGTAACTCAATTTT
CTAGGTTCACTGTCCCGTTTCGCTCGTCGGAACAAACCCTAGCCACTTCACTCCACTCTTCTCTGCCACCTGAACTCATC
TGCGGCGGTTTCCGGTCAACTCCGGCATGGCAGGTAGAGGATCGGACTCCGACCACTCTGAATCCGCCGACTGAGGTGTC
TTCCGTGCGGGGTGGAGGAGGCAATGGCAGTCCGCCGCTCCCGCGAGGACAGCGCGACGGATTTGTCCGCCGCGACTCCA
TAGTATCGGCTAACCGGGCGCTCAGACCTCTGGTGTTGGATCCTCGCGGTTCCGGCAACTGGAACACCTCTCCTTCCCCA
TCACCGGTCAGTCCCACCGGGAACGGGCGGCCCGCCGTGGGAAGGAGAGGATAAGGGCCGCCGAGGCCCGTATCATGGTG
GAAATGGCAGCTAATGCGGCGCCGCAGGCGGCTGCAGAGGAGGAAGTTATCCGCGCCCACATTGTGAAGAAACAGCAGCG
GAGGAATACGCGCGCCATCGTCTGAGAGCAAAATTTGGCTGTCTGTGCCATGGTCGTACTGCCATCGAAGGAGGTGAAGG
CGGACAATGATGGCGAGGACAACTCCGGCGACAAGCAGATTCGGCTTGATCCATATTGCGTCTTCGACCGGTACTTCCGC
GAGAAGGACAACAAGGGAGCCAGGAAGGGCCAGGGCAGCCATGGATGAATTTTACCCTAGCCAAACATACCAAGTTTTGA
TAGTATGATGGCATATTTAGTTAATAGTGATTGAGTAGCCGAACGATGTTTTTGCATCGGCCGTAGTTGCATGAGTTTGT
ATGAATTTAGATATGATAATTGAGGTGTCTGAATGTGAATGACATTATTTTAGGGATGCCCGGTCAATGCCATGACCACG
GACGCCCCCGTCCGCGGGCGTTTGAGAGGCCGGATTAGTCAGGCTGTAGATTAGGAAAGTGCTCGAGAGTCTATGGATTG
GACTATATTTTGACTGCAGCTCTAATACTTCAGCAGACACGTCCCCCAGTGAAACTCAACGTCTAATCACACAGCTGCTG
AGCAAGTGAACTCATGCGACAACAAGGTTGAAAAATGGAAATCTGATGACGCAGAGGCTTTGGTACGGCGCAGAGAGTTA
ATGAAAAGCTTCCTTTTCCAAATACAAAAATTAATGACAAGAACATCGACGAGTCACCTACACCTCCACAGTAAGAAAAA
ATGATTAAGTCCCTGTGAGGACCTGTCCATGTAAACATTGTCCCTAGCTAGAGGCACGAATCTTGCGTAGAACCACTAAG
GAATACGCAGACCACACCAAGAAGTAGTACAACTGTTGAGCCATCGTTACCTCAACGTCGATCGAGATTACAACAGAG--
--GCTGATCAATTAAGGGTGC----------------TATACATACGTGGCCATCCTTGGAGGCGACGCGATCTG-CTTG
TCATCGTGGAATCGCGCGACACGTTGAGTGAACAACAACAT----GTGAGTGAGAAAGAGTGTGAACGGATTACACATCC
AGGCCATAGCTCGACGACGTCGACCGCGCGA----CACGTCGCCCCACACCCGTGACGAGTCA--------------TCC
G----------------------------------------------TAGCGAGCCGACGAGGATATGCCAACAAATTCG
GACGACGTCGCCGTCGGAACGGTCCAGAAAAAGTCGTGCAC-------GGGAGGGACCGTTTTGTAATCCATCTTTTG-T
TGCTTCACGTGCG-ATATTTTTTGGCGTAAAATGGCGCTGT---------------------------GAAGTG-----T
TTTTGGATAATTTTAAATGTGTTTTTTAGGTGCATCGGGTCTGCTTTCACCGTTGCTCGGATTTCTCGCGTGTGCTTTCG
TGATCGT-------------ACCATATGAGTCCATGCACAAAGCAACGAA------------------------------
-----GCAAGGACAACTCAAGCTACAGAGACAGGTGCAGCTCCGCGGGAAGGCGCAAGGCA--AAGTAGGTGGCAGGTGT
CTATACTTTCGTCGTCCATATATAGCCGGTGCCTCGCCATTAGCCAGCTCCAAGCATTCACAAGAGGAAACGAGCTACCT
-AGCATTCGGTACGGGAATTCGTTCGGTACGC----AGCTACATACATACCTCCAAGCAGAGCTAGGTAAACTAGAGGAG
GAGGATGTCGTTGGTGAGGTTCTTCGACACGCTGGCCCTGGACGCGTGGAACCCCTTCGGCAGCATCTTCGGCACGACGG
CGTCAAGCGGAACCGACGCGTGGCTGGCCAGCGACACCACGGCGTTCGCCGACACCTACATCGAGAGCCGGGAGACGGCG
GAGGCCTACGTGTTCAGCACCAGGCTCCCCGCGGGGGTCACCAAGGAGGAGGTCAAGGTGGAGGTGGAGGAGGAGGGCAA
GGTGCTGGTCATCGCCGGCGAGCGGTGCCTGCGGAGGGAGGCCAAGAGCGAGACGCGCCACCACGTCGAGCGCAGCAGCG
CCACCTTCTTCGGCAGGTTCCACCTCCCCGACGACGCCGCCTTGGGCCAGGTCAGGGCCGCCATGGACGACGGCGGTGCG
CAGCTCACCGTCACCGTGCCCAGGGTTGGCGCCGCCGTCC---CGGTGACCATGCCTGAGCCGGCAGTGGCCATCGAGGT
CGTCGAGGTCAGCCCGTGCTGATCGCCGAC--------------------------------------------------
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>chr3B_173
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------------AG------------------------------------------------------------------
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-----------------------------------------------CTAGAGGCTATAATCGTGCGTACAACCGCTTAA
GAATACGCAGACCACACCAACAAGTAGTACAACTGTTGAGCCATCGTTACCTCAACGTCGATGGGGATCACAACACAAGC
TAGCTAATCAATTAAGGGTGCGGCACGTACTATACAGTATACATACGTGGCCGGCCTTGCACACGACACGATCTTTCTCG
TCGACGGCAC--------------------AACAACAACGT----GTGAGTGAGAAAGAGTGTGAACGGATCACCCATCG
AGCCCATAACTCGACGACGTCGACCGTGCGA----CATGTTGCCCCACACCCGATCGGCCGCGAAGCCTAGCTCGCGTCC
G----------------------------------------------AAGCGAGGTGACGAGGATATGCGAACAAATTTG
GGCGACGTCGCCATCGGACTGGTCCGGAAAAGTTGTGC--C-------GGGGAGGACCGTTTGTAACTCAA--TTTTT-T
AGCTTCACGTGCG-ATATATTTTGGCGTAAAATGGTGTTCTTTTTTTCCAACCGGGCATGATGCAGTAAAATAAGGATTT
CTTTTGATAATTTTCAATGTGTTCTTTAGGTGCATCGGGTCTGCTTTCACCGTTGCTCGGATTTC------------TCG
TGATCGT-------------CCCATATGAGTCCATGCGCAAAGCAACGAAACTGACCTGTTCACTTCACATTACTCCCGC
AAGC-GCAAGGACAAGTCAAGCTACAGAGACAGGTGCAGCTCCGCGGGAAGGCGCAAGGCA--AAGTAGGTGGCAAGTGT
--ATACTTTCGTCGTCCATATATAGCCGGCGCCTCGCCATTAGCAC-----------TCACAAGAGGAAACGAGCTAGCT
-AGATAGCA-------------TTTGGTACAC----AGCTACATACATATCCGGC--------ACG------------A-
GAGGATGTCGTTGGTGAGGTTCTTCGACACCCTGGCCATGGACTCGTGGAACCCCTTCGGCACCATCTTCGGCACCACGG
CGTCCAGCGGCACCGACGCCTGGCTGGCCAGCGACACCACGGCGTTCGCCGACACCTACATCGAGACCCGGGAGACGGCG
GACGCCTACGTCTTCAGCGCCAGGCTCCCCGCCGGTGTCACCAAGGAGGAGGTCAAGGTGGAGGTGGAGGAGGACGGCAA
GGTGCTGGTCATCGCCGGCGAGCGGTGCCTGCGGAGGGAGGCCAAGAGCGAGGCGCGCCACCACATCGAGCGCAGCGTCG
CCACCTTCTTCGGCAGGTTCCACCTCCCCGACGACGCCGCCTTGGGCCAGGTCAGGGCCGCCATGGACGACGGGGGCGCG
CAGCTCACCGTCACTGTGCCCAGGGTCGGCGCCGCCGTTGCCGCCGTGACCATGCCCGAGCCTGCCGGGGCCATCGAGGT
CGTCGAGGCCAGCCCGTGCTGATTGGCTGATTGCGGCGTACTCCGGTGCCGACTGCAGACAGAGTGCAGACATACGTGCG
GTAAG-----TTGCCGCTCGTATGATCTGCTCGATCGGGTCCTTTGGGTGTGATTCCACAAATTGTGGTGTTCGATGTAC
GTAAC-----TACGTACTTGAGTCGGTATGTGGCTTGCTGTT---GTGACTTGTGAGTGAGGTGCTTGCATGGTTGCCTG
TACTGTTACTTGTTAGTTCTCGTGTTCACGCTCAAATTAATGAAGTGTTCACGAAGTACTCGCTAATTAACTGTACTCGT
TGAAATATGAGACCACCTATACATCAAGCCTGCCTAAAAAAAACTATG--------CATCAAGCGCATGATTTATTTTAT
TTCTTTCGATTCGCCCAACCCTTTCGATTTTGATCTATTCGTAATCTATTTATAATATGTCATGACAGTTAAAAAGGCAT
CGGAAGTGACAAAAATATAACAATGTTCATGGTCATGGACCACCTAGAAACGACTAAACCACTAGAGCAAGTCAAATGCA
TATGTCATCACCATCACCCCTCCTTCACCGGAGTCGACCAAACCTTATTATAATAGACAATCGAGAAATTGTCATGTTAA
GGCTTTATAGGACCAGCGCACTATAACAGCAGCCAATGCCGACGAAGAGAAGAATAGATTGAAATGATCAAACTTGTAGA
CAGACAAAACAAACAAATACGATGGACTGCCGAATCAAGATG-ATCCACCGAAGACGAGCAAAGACTGAATTCAAACAGA
TCCACCAAAGACTAGCACCGAACAAATCCCGAGAC-TATTGGAGACACGCCTCAATGGTTCAAGACGCCCCGTCGGGACG
GGGCTAGGACGTAAGGACATTAGTCCATCTACAGGGAGGTGTTGCCGCCTCGCCTTTCTAAGCAGGACACAAATCCTAAC
CAAACTCAAAACTCTAACTAAAACAAGGAGCATGGTCCCTGCCACCAACAAGGTTTGGAGTCCATCATGCCTTCATGGCC
CTAAGGCCACCGAAGA
>SNPs
--S--S-SSSS-SSS-SSSSSS-SSS-S-S-SS-SSSSS--SSS---SSS-SS-SS-SS-S-SSS-SSSSSSSSSS--SS
--SSSSSSS-SSSS-SS-SSSS-S--SSSSSSSSSS-SSSS-SSS-SSSS--SS---SSSSSSS-S-S-SSSS--SSSSS
SSSSS-SSS-SS--------------------------------------------------------------------
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--------------------------------------------------------------------S-----------
----------S--------------S----S-------------------------------------------------
---------------------------------------S--------------------S-------------------
---S--------------------------------------------------------------------S-S-----
-----S----------------------S-S--------------------SSS---SS--S-SSSSS------------
---------------------------------SSSSSSSSSSSSSS---------------------------------
-----------S----------S----------------SSSSSSSSS--------------------------------
--S---------------------------------S--------------------------------------S----
---------S-----S---SS--------------------S--------------------------S-----------
------------------------------------------S-----------S--S-S--------------------
---------------------------------S---S-S----------------------SSS-SS--SS--------
S---------------------------S------------------------------------S--------------
----S------------------------SSSSSSS------------------------S-----S-----SSSSSS--
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-------------------------------------S------------------------------------------
-----------------------------------S--------------------------------------------
-------------------------SS-----------------------------------------------------
-----------------------------------------S--------------------------------------
-------S------S----------S-----S---------S--------------------------------------
--S-------------------------SS-SSSSSS----------------------------------S-S--S---
-----SSSSS--------S-------------------S---SS------------------------------------
-----SSSSS--------------S--S-S----------S-SSS---------------------------S-------
--------------------S-------------------------------S-----S---------------------
-----S------------S-S---------------------SS----SSSSSSSS------------------------
----S-------------S--S-S-S----S------------S------------S-S-----S----------S----
SS--------------------S----------------------------S---------S-S----S-------S---
-SSSSSSSS------------S-------S---S--------------S--S---------------S--S----S----
--SS-S------------S-S--S----S-------SS-----S-------S---------------------S-S----
--S--------------S---------S--------------S---------------S---------S-----------
------------S----------------S----SS---S-S-----------SS----S-S-----S------------
----------------------S----------------------S------S---S----S------------------
-S--S-------SS------------------S-S---S-S----SS-S----SS------------S------------
----------S-----
>forward_2556
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--------------------------------------------------------GCAGGGCTAGCTAAACCGAT----
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>reverse_3876
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-----------------------------------TTATCGAAGACACGCCTCGG-------------------------
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