>input_sequence_76959
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--------------------------------------------------------ATGACGAGGCCTTCGCAAGTTCTC
CCGCAGCTCGCCG---TCCTCCTCCTCTTCCTCCTCGTCTCGTCCAGCGCCGCTTCCACTCTAGACGA------------
----------------------------------------------CACCTGCAAGTCCGTCAGCGCGAGCAACAAGGAC
CTCGCCTACGACTACTGCGTCAAGTTCTTCCAGGCGTGCAAGGGCAGCGCCACCGCGGACAAGCGCGGCCTCGCCGTCAT
CGCCACGAAGATCATCCGAGCGGCGGCCGTGAGCACCGGCAGGCGCATCGCCACCATCAAGGCATCGCAAGGGGACGACA
GGAGGATCCAGGGCCCGCTCGCCGACTGCGACGAGCTGTACTC-------------------------------------
---------------------GAGCGCCGTGGACCAGCTCGACGCGGCGGCGAGGGGCATCTCGTCGGGGAAGTTCCAGG
ACGCCCTGACGAACCTCA----------------------GCGCCGCTGCGGACGCGCCGCAGACCTGCGAGGAAGGGTT
CCGCGAGCTGGGCGTGAGTTCGCCGCT----GGCCGACGAGGACTCCAAGTTCAGTAAGGAGTGTTCCATCGCTCTCGCT
GTAACGAACACGTTGTAA--------------------------------------------------------------
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>chr2D_1_TraesCS2D01G452500
GACAGAAATAATGGAGAGAGAGAGAGAGCGCGCCTATGAGAGAGAACTTCACTTTCTTCTGAAGAAGTGACACAGAAAAA
ATGGAGAGAG--GGAGAGAAAGCTTGTGACAGAT----------------------------------------AAACGT
TGGAGTTTACATGACAGAGAACAAAGAAATAAAAAAAAGTAGTATGACGCGCCAGAAGGAGGAAAAAGGAAGAAGTAAGT
GAAGGAAAGTAGTATGAGGCTGATGTGATGTTCCTGGGGTCCATGCACAAACGCCGCATGCACCGCAGACGCCACATGCA
-AAAGCCCATGACCTGTCCTTTCAACTCCGGCCAGGCCTACCACCGTGCACGGTTTTACCTCTGCAAAAGCCTACTCTGC
CTCACACAACCTACCTGCTTAATTAAACCTGCCACCGCTAATAACCTGCTGCGGCCTGCAACACTGCACGAATCTTAAAA
AGGCTGGACGCGCCAGATAAGAGGGTGCCGGGGAACCCGGGTGCCATCACACCTTTTCGTATAGGTTTTAACTCAATTTC
AGAA--------AAAGCTAGGTAGTAGTTTATATTATAAAACAACCATAAGTTCCGTCTAATAATCAGATATTGCACTTG
ATGTTAATGTTGCAGTTAAGATTTTGGAGACATTTACACGTTCAAGCAACAGGTACAGTACTTAGTCCATCC-TGTTATA
ATTACAGTACAGTTACATTGTTATTACTCTTAGCACTTAAATTTGAGCTTT---GTCCAGAGATTTGCTTCGTCCTCCTC
CATCTAACCAG--------TTACCTACACGAC------------------------------------------------
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---------------------------------------------------TAGTCCAGCCGGCGTAGCAGCAGCGCCGG
AGTCGCAGTCACTGAACTCCACAACGAGGTCCACGCCCCCGGCGTCTACAGTTAATCATACCCGAATTTCCCATCGAGCA
GACGCCACCTGAATTTCATTGCCTAGCAGGATCCCCCCTACGTCTCTCTATATAT--------------ATATCGTCTCC
CTCCACATCCAAAAGACAAAACGTCTGACACAACCACCACTAAAACCAGCGCAAAGATGACGAGGCCTTCGCAAGTTCTC
CCGCAGCTCGCCG---TCCTCCTCCTCTTCCTCCTCGTCTCGTCCAGCGCCGCTTCCACTCTAGACGA------------
----------------------------------------------CACCTGCAAGTCCGTCAGCGCGAGCAACAAGGAC
CTCGCCTACGACTACTGCGTCAAGTTCTTCCAGGCGTGCAAGGGCAGCGCCACCGCGGACAAGCGCGGCCTCGCCGTCAT
CGCCACGAAGATCATCCGAGCGGCGGCCGTGAGCACCGGCAGGCGCATCGCCACCATCAAGGCATCGCAAGGGGACGACA
GGAGGATCCAGGGCCCGCTCGCCGACTGCGACGAGCTGTACTC-------------------------------------
---------------------GAGCGCCGTGGACCAGCTCGACGCGGCGGCGAGGGGCATCTCGTCGGGGAAGTTCCAGG
ACGCCCTGACGAACCTCA----------------------GCGCCGCTGCGGACGCGCCGCAGACCTGCGAGGAAGGGTT
CCGCGAGCTGGGCGTGAGTTCGCCGCT----GGCCGACGAGGACTCCAAGTTCAGTAAGGAGTGTTCCATCGCTCTCGCT
GTAACGAACACGTTGTAAGCGACAAAAGTCTATAA-TCATTTGGATCAATATAATCCTGGAAT---ATAATCCTGTATGG
ATCGTGGTGAAC--------------------------------------------------------------------
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------------------------------TGACATAGCAGTCATTAAGAACACGGCACACAATTTG-GGACGATCG--T
GGCCATCAAAGCGAATGCATG----AGCATCCATCGTGCATCAATGTTTGCCAATGTTCAGGAGATCTGACGGCATGGGA
TGAGATGCCCATGCGCGGCACGCTAACGAATTTTGTACGCAAGAGATGCTTGCCAGGCAAGTGCAAGATTATATTATTGT
TGCCATTTGTTGATTAGCAAGGCAATCGAATACGCCCACACGTATTAGTTGCCACATACATCAAAATAGCGGATGCCGGT
ATCCTTTTGTTTAGTCATATCATTTTCAAGTGTTTTACGTACAGCGAAACGTCACAACGA-TGGTTGCAGAACAAATCTG
ATA------CCGGTAGCACATGATGGATGCATGGGTCATGCTGTGTCCGA---CGGCGCCGCAGCCTGCAGGTGGCGCCA
GCCTCACCGCGGGTAAGGTCCAGCCACGAAGGCCATGTCCGGTCAGGCAGTCAGCGTCGTCGCGCGCGGATGGAGGCGGC
AAACCA----GCGTGCGCGAACGTTTCGAGTCGAAGATGCAAACTTATTTTTATTTTTTTTGCGGGGGAAAGATGCAGAC
TTCGGAAAATTGGCCACGATGATTCTAAGCTTACGATAATCCTAAATTTTACTGTGTGGGCCTCATGATTTCCAACCAAA
TGTTACCATGTACTTCCTGTTTAAAGATATAAGTTTTAGATCACTACTAAAGAATATAAGACATTTTCGATCACTACTAG
TGATTTAAAACGTCTTATATTTCTTTTTTTTTTCTTGAGAAAATTTTCAATCTATTCATCAAACATCAAGGTAGTACAAA
AACATCAGAAACAACAAAAATTACATCCATGTATGTAGGCCACCTAGCAACAATTACAAGCATTGGAGCGAGCTGAAGCC
GCTGCCATCATAGCCCCTCCC-----------------------------------------------------------
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>chr3A_1
GACAGAAATAATGGAGAGAGAGAGAGAGC----CTATGAGAGAGAACTTCACTTTTTTCTGAAGAAGTGACATAGAAAAA
ATGGAGAGAG--GGAGAGAACACTTGTGACACATAAATGTTGGAGTTTACAT---GACAGAGAACAAAGAAATAAAACGT
TGGAGTTTACATGACAGAGAACAAAGAAATAAAACGTTGGAGTTTACATGACAGAGAACAAAGAAATAA-----------
-----AAAGTAGTATGAGGCTGATGTGATGTTCCTGGGGTCCATGCACAAACGCCGCATGCACCGCAGACGCCACATGCA
AAAAGCCCATGACCTGTCCTTTCAACTCCGGCCAGGCCTAC------------TTTTACCTCTGCAAAAACCTACTCTGC
CTCACACAGCCTACGTGCTTAATAAAACCTGCCACCGCTAATGGCCTGCTGCTGCCTGCAACACTGCACGAATCTTAAAA
AGGCCGGACGCGCCAGATAAGAGGGTGCCGGGGAACCCGGGTGCCATCACACCTTTTCGT--------------------
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>chr3A_1
GACAGAAATAATGGAGAGAGAGAGAGCGC----CTATGAGAGAGAACTTCACTTTTTTCTGAAGAAGTGACACAGAAAAA
ATGGAGAGAAAAGGAGAGAACATTTGTGACAGATAAACGTTGGAGTTTACATGACGACAGAGAACAAAGAAATAAATCGT
TGGAGTTTAGGGCATCTCCAGCCGCGCCCCCAGGAAGGCCTCCCCAGGCGATTTTTTCGCGCCGGCGCCGAAAAAATGGC
CCAGTCGCGCCCCCAGAAGCTCGATTTTCGCCGGCTTGG-------------GCCGAAAACAGCGCCGGCGGAC------
-------------------------------CCAGGCCTAACCCGGCGCGCTG---------------------------
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--------------------GGGGGCGCCCGGGGGCGCCGGGGCGAGCTGTTTTGGCGCGAAAAAGACGCGGGCCAGCCG
CGTCAGCGACTCGGC-----------------------------------------------------------------
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------------------------------------------------------------------GCCTCGTCTTCCCC
CAACGGCCTCGATTCCCGCGGGGAATCAATGGCAAGGCTGCCGCCGGTCAGCCTTGCCATTGATTCCTCACGGGCGGCGC
GTTCACGGGACGGCGCGCCAACGCCTCCACTCCCTCGCACGCGTACACACGGGCGCGGCCCGGCTATAAAAGTCGGCGGC
CTCCGCTCACCTGCGCCCACACCAGCCCTGCCCCTCGCCGCCGTCCAGCCCTTCCTCTCCCTACCTTTCCCCGAGCGCCG
CCGCCCAGCCCCTCCCTCTACCTCTTCCGAGCCCGCCCAACCCCGCCTTCGCCATGGCAGAACGCTTCCCCGGAGATACG
GCGGTGGCCAACGGCTTCGGCCGCCGTTCGCTGCGCAAACAGGAGTCCTGGCTCCTGTTCCAGGCGAACATCCCGGCGCC
GCCGGACATGCGCGCCGGGCCGACGGGGTGGAGACTCAGCGCCGGGGGAGTGCCCATTCCCCCGTTGCCCGACGCCGCAG
CGGACCCGAGGTACTTCGCCGAGGAGGTCGAGATCGTGCGCGCGTCCCTCACCGACGCCGAGCTCTCCCTCCCCCAGTAC
GCCGCAGACAACCACGCGGCCTGGGCGGCGTATTTCGAGCGCCGCCAACAGCAGCGCTTGGCGTCCACCAACGGTGCGCC
GGTGGTCGGCAGCCGGCAGAACAGCGAGGGACGCTACCTCTGGTGGGGTGTCCCCGGCCGCACACTCGAGGGCGTGCTCA
CGTACCTCGAGGGCGGCAACGACCCGCCGTTGGCGTACCCCCCGGCGAGGGTGGCCGCGCCGGCGCAGCACCGACGCGTC
GGGCCATGGGCTCCAAGGAGGTTCGGCG----------------------------------------------------
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-----------------CCTCCTCTTCTTCCTCCTCATCATCCCGTTCTTCTTCACACTCCTCAGGCTCTTCGGCGCTGC
TCGGCGTCAAGGCCGAGCCCGCGGCGGAGACGCCGCTCGGCCGGCGCACTCGCAGCGCCGACATCGTCATCAACGAGGGC
GGCCGGC-------------------------------------------------------GCGCCCCCTCGTCGGCTC
CTCCGCGCTTCGTCAAGCCAAAGACGGAGCCGGGGCTGGCGTCGGTGAAGACGGAGCCGGGGCTGGTGCCGGTGA-----
---------AGGCCGAGTTCGCCGACGACGACGACGCCGCCCTCGAATGGGCGCGCCAGGACTCCATTGCGATGGAGAAG
GCGTGCCGCGAGAAGGAGAAGGAGCGCCAGCGCGCCGCCCTACGCCGCTTCGAGGAGCGCCGACGCGGCCGCGAGAAAGG
TGGGGTCGTCGTCTTATGCGACAGCAGCAACGACGGCGACGCGCCGCCGCCTGTTCGCCATGGCGATGCCGGGCAGGGGT
CCAGCAGGGGCGCCCGCGTCAAGGAGGAGAAGGCCGACGACGATGATGGCGGCGACGACTTCCC----------------
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--CCTTTCTTTTTTTTAGATTAGGTTAATGTAATGTTTGGA---------------------------------------
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---------------------------------------CGAATTTCG--------------------------------
---CCGAAATTTGCC-----------------ATGTTTGGCCGAAATTTAACTAGTTTTCATCATAACTTCGCCGAACG-
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--------------------TTCTTTTTTCTGTTTTTAAATACGCGCCTGGGGGCGGCCCTGGGGGCCGACGGCTGGGGA
CCGACTCGCCCCCAGGCTATTTTTTGCGCCGGCTCATCCCCAGGCGGCGCTTTTAAACGCCCCGTGGGGGGCCAACGGGT
GGAGATACCCTTACATGACAGAGAACAAAGAAATAAAAAGTAGTATGAGGCTGATGTGATGTTCCCGGGGTCCATGCACA
AACGCTGCATGCACCGCAGACGCCACACGCAAAAAGCCCATGACCTGTCCTTTCAACTCCGGCCAGGTCTACTTTTACCT
CTGCAAAAGCCTAGTCTGCTTCACACAGCCTACCTGCTTAATTAAACCTGCCACCGCTAATGGCCTGCTGCTGCCTGCAA
CACTGCACGAATCTTAAAAAGGCCGGACGAGCCATATAAGAGGGTGCCGGGGAACCCGGGTGCCATCGCACCTTTTTCGT
ATTGTTTTACTCGAAT
>chr2A_497
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-----------------------------------------------------------TATAGGTTTTAACTCAATTTC
AGAA--------CAAGCTAGGTAGTGGTTTATATTATAAAACAACCGTAAGTTCCGTCTAATAACCAGATATTGCACGTG
ATGTTAATGTTGCAGTTAAGATTTTGAAGACATTTACACGTTCAAGCAACAGGTACAGTACTTGGTCCATCC-TGTTATA
ATTACAGTACAGTTACATTGTTATTACTCTTAGCGCTTAAATTTGAGCTTT---GTCCAGAGATTTGCTTCGTCCTCCTC
CATCTAATCAG--------ATACCTACACGAC------------------------------------------------
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---------------------------------------------------TGGTCCA-----------------GCCGG
AGTCGCAGTCACTGAGCTCCACGATGAGGTCCACGCCCCCGGCGTCTACAGTTAATCATACCCGAATTTCCCATCGAGCG
GACGCCACCTGAATTTC-----CTAGCAGGATCTTCCGTCCC--------TATAT--------------ATATCGGCTCC
CTCCACATCCAAAAGACAAAACGTCTGACACAACCACCACTAAAACCAGCGCAAAGATGATGAGGCATTCCCAAGCTCTC
TCGCAGCTCGCCGTCCTCCTCCTCCTCTTCCTCCTCGTCTCATCCAGCGCCGCTTCCACTCTAGACGA------------
----------------------------------------------CACCTGCAAGTCCGTCAGCGCGAGCAACAGGGAC
CTCGGCTACGACTACTGCGTCAAGTTCTTCAAGGCGTGCAAGGACAGCGCCACCGCGGACAAGCGCGGCCTGGCCGTCAT
CGCCACGAAGATCATCCGAGCGGCAGCCGTGAACACCGGCAGGCGCATCGCCACCATCAAGGCCTCGCACGGGGACGACA
GGAGGATCCAGGGCCCGCTCGCCGACTGCGACGAGCTGTACTC-------------------------------------
---------------------GAGCGCCGTGGACCAGCTCGACGCGGCGGCGAGGGGCATCTCGTCGGGGAAGTTCCAGG
ACGCCCTGACGAACCTCA----------------------GCGCCGCTGCGGACGCGCCACAGACCTGCGAGGAAGGGTT
TCGCGAGCTGGGCGTGAGTTCGCCGCT----GGCCGACGAGGACTCCAAGTTCAGTAAGGAGTGCTCCATCGCTCTCGCT
GTAACGAACACGTTGTAAGCGACAA-AGTCTATTAGTCATTTGGATCA------------ATATAAATAATCCTGGAATA
CAATTTTAGACCAGATAAACTCCGCAATCACGTTTGGCCGCACTTTCCTTTGTTGTTCTATAAATTATACTCCCTCTGTA
AACAACTTCAGTGGATTTTTATTGTTCTTAAGTAGTGATCTAAACGCTCTTATATTAATTTATGAAAAGTGTGAAAGTAA
GTAACAAGGTCAGTGGATTTTTGGCCTCATGGCTCGCGGATGCTGTCCGATGCCTAGATCTCCGCATATGTGATGATGGT
GAAGTTTCTCAAAAAAAAATATGATCATGGTGAAATAGCAGTCACTAAGAAAACGGCACACAATTTGCGGACGATCG--T
GGCCATCAAAGCGAATGCATG----AACATCCATCGAGCATCAATGTTTGTCAATGTTCAGGAGATCTGGCGGCATGGGA
TGAGATGCCCACGCGCGGCACGCTACCGAATTTTGTACGCAAGAGATGCTTGCCAGACAAGTGCAAGATTATATTATTGT
TGGCAATC-------------------AAATACGCCCACACGTATTAGTTGCCACATACATCAAAATAGCGGATGCCGGT
ATCCTTTTGTTTAGTCATATCATTTT-AAGTGTTT----TACAGCGAAACGTCACAACGAATGGTTGCAGAACGAATCTG
ATACTGATACCGGTAGCACATGATGGATGCATGGGTCATGCTGTGTCCGGCGGCGCCG----------------------
GCCTCACCGCGGGTAAGGTCCAGCCACGAAGGTCATGTCCAGTCAGGCAGTCAGCGTCGTCGCGCGCGGATGGAGGCGGC
AAACCA----GCGTGCGCGAACGTTTCGAGCCGAAGGTGCAAACTTCG--------------------------------
---GGAAAATTGGCC-----------------ACGATAATCCTAAATTTTACTGTGTGGGCATCATGATTTCCAACCAAA
TGTTACCATGCACTTCC---------------------------------------------------------------
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>chr2B_498
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------------------------------------------------------------ATAGGTTTTAACTCAATTTC
AGAAGGAAAAAAAAAGCTAGGTAGTGGTTTATATTATAAAACAACCATAATTTCCGTCTAATAATCAGATATTGCACTTG
ATGTTAATGTTGCAGTTAAGATTTTGAAGACATT-ACCCGTTCAAGCAACAGGTACAGTACTCAGTCCATCCCTGTTATA
ATTACAGTACAGTTACATTGTTATTACTCTTAGCACTTAAATTTGAGCTTTGTCGTCCAGAGATTTGCTTCGTCCTCCTC
CATCTAATCAGTTATTCAGTTACCTACACGAC------------------------------------------------
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---------------------------------------------------TAGCCCAGCCGGCGTAGCAGCAGCGCCGG
AGTCGCAGTCACCGAGCTCCACGATGAGGTCCACGCCCCCGGCGTCTACAGTTAATCATACCCGAATTTCCCATCCAGCA
GACGCCACCTGAATTTCATTTCCTAG-AGGATCCTCCCTACGTCTCTCTCTCTATATATATATATCGTGATGTCGTCTCC
CTCCACGTTCAAAAGACAAAACGTCTGACACAACCACCACTAAAACCAGCGCAAAGATGATGAGGCCTTGGCAAGCTCTC
TCCCAGCTCGCCG---TCCTCCTCCTCTTCCTCCTCGTCTCGTCCAGCGCCGTCTCCACTCTGGACGA------------
----------------------------------------------CACCTGCAAGTCGGTCAGCGCGAGTAACAAGGAC
GTCGGCTACGACTACTGCGTCAAGTTCTTCCAGGCGTGCAAGGGCAGCGCCACCGCGGACAAGCGCGGCCTGGCCGTCAT
CGCCACGAAGATCATCCGAGCGGCGGCCGTGAGCACCGGCAGGCGCATCGCGACCATCAAGGCATCGAAAGGGGACGACA
AGAGGATCCAGGGGCCGCTCGCCGACTGCGACGAGCTGTACTC-------------------------------------
---------------------GAGCGCCGTGGACCAGCTCGACGCGGCGGCGAGGGGCATCTCGTCGGGGAAGTTGCAGG
ACGCCCTGACGAACCTCA----------------------GCGCCGCTGCGGACGCGCCACAGACCTGCGAGGAAGGGTT
TCGCGAGCTGGGCGTGAGTTCGCCGCT----GGCCGACGAGGACTCCAAGTTCAGTAAGGAGTGCTCCATCGCTCTCGCT
GTAACGAACACGTTGTAAGCGACAA-AGTCTATAA-TCATTTGGATCA------------AAT---ATAATCCTGTATGG
ATCGTGGTGAAC--------------------------------------------------------------------
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------------------------------TGACATAGCTGTCATTAAGAAAACGGCACACAATTTGCGGACGATATCAT
GGCCATCAAAGCGAATGCATGCATGAACAACCATCGTGCATCAATGTTTGTCAATGTCCAGGAGATCTGACGGCATGGGA
TGAGATGCCCATGCGCGGCACGCTAACGAATTTTGTACGCAAGAGGTGCTTGCCAGATAAGTGCAAGATTATATTATTGT
TGCCATTTGTTGATTAGCAAGGCAATAAAATACGCCCACACGTATTAGTTGCCACATACATCAAAATAGCGGAGGTCGGT
ATCCTTTTGTTTAGTCATATCATTTTCAAGTGTTTTATGTACAGCGAAACGTCATG----ATGGATGCAGAACAAATCTG
ATAGTGATACCGGTAGCACATGATGGATGCATGGGTCATGCTGTGTCCGGCGGCGGCGCCGAAGCCTGCAGGTGGCGCCA
GCCTCACCGCGGGTAAGGTCCAGCCACGAAGGTCATGTCCAGTCAGGCAGTCAGCGTCGTCGTGAGCGGATTGAGGCGTC
AAACCAGCATGCGCGCGCGAACGTTTCGAGTCGAAGGTGCAAACTT----------------------------------
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>SNPs
-----------------------------SSSS----------------------S------------------------
--------------------SS----------------------------------------------------------
------------------------------------SS-S---S-SSSSSS-SSSS-S---SS---SSSS-S--SSSS-S
SS--S---------------------------------------------------------------------------
------------------------------------------S-S-S--S-S-----------------S----------
--------S-----S--------S------------------SS--------S---------------------------
----S---------------------------------------------------------------------------
-------------------------S------------------------------------------------------
--------------------------S-----------------------------------------------------
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----------------------S-S-------------------------------------------------------
--------------------S-------------S--------------S------------------------------
------------------------------------------------------------S--------------S----
S-------------------------------------------------------------------------------
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----S---------------------------------------------------------------------------
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-----------------------------------------------------------S--------------------
----------------------------------------------------------------S---------------
-------------------------S----------------------SSSSSSSSSSSS--------------------
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---------------------------------------------------S----------------------------
--------------------------S-----------------------S-----------------------------
--------------------------------------------------------S-----------------------
--------------------------SS----------------------------------------------------
-------------------------------------S------------------------------------------
-------------------------------------------------S-----------S------------------
--------------------------------S-------S---------------------------------------
------------------------------------S---------SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSS------------SSSSSSSSSSSSSSSSS-----------------------------S------------------
----------S------SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSS---------S-S-S--S-S-S-SSSSS-SSSSSSSSSSS-SSSSSS-SSSSSSS-SSSS-
SSS-SSS-SSS-S-SSSS-S--SSSS-SSS-SS-SSSSS---SSSS--SSSSS-S-SSSS-SSSS-S-S-SS-SSSS-SS
-SS-SS-S-S-SS-SSSS-SS-----------------------------------------------------------
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>forward_1623
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---CGCAGTCACTGAACTCCACA---------------------------------------------------------
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>reverse_3423
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--------------------------------------------------------------CGGGGGAAAGATGCAGAC
TT------------------------------------------------------------------------------
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