>input_sequence_77401
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-------------------------------------------------------------------------------A
TGAAGCAGGAGAAGGGGCAGGGCGGCGGCG---GGAGGAAGCTGGGGCGGTGGCTGGGGGCGCCGGTGCGGGCGCTGTCG
CGGGCGTGCGACTCGTACGTGCGCAAGATGTCGGCGTGCGCGGGGGCCATGCCCACGCAGTACGCGGGCGCCATGGGCCG
CGGCGGGGCCGGGGCCATGCACATGCAGGCGGCCACCTTCAGCTCGCGCTCCACGCGCCGGGGGGACGACGACGTCAGCG
AGTTGGTCCGCGCCATGTCCCAGCGCCAGCAGGGCAGCAGCGCCTCCCCCGCGGCCGCGGCCGTGCCGCCCAGGAGCCGG
AGCGTGGGGGTGGGCAGGATCGACGAGGACGCGCCGTGCGACTTCGGCGCCGACGCCGGGCGCGTCGGCCTGCCCCCGCC
GGCCGTGCGCAGGAGCCGCAGCGCCGCCGTCGGGAGCGGCCTCCCGCCGCGCGTCGGCGGGGGCGGGGGTTTCGGCGCCG
CGACGATCAAGAAGGT---CCC---CGCTGCCGGCGTCGTGCACGGCGGCTAA---------------------------
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>chr1B_1_TraesCS1B01G345700
GCCCATGTCTGCATCTGCTCTAATTTTATCCGCACAACAA-GACGGCATCACGTTTCTCAATCGAACAACTCTGCCTTCT
TTCCTCAAATCACGCCCTTGCATACATGCACTTCTATATAATTTCCCCTAAAAATACTCCGATGTAATATGATTTGGTAA
AAAACAGTT---CTAGTAAAAGCTAAGTTTAGCTCAGGAGTATACAAACAGCATTGCTCAATCCAGTTAAAGC-------
----------GCTCGAGAAAGGCTGGGAAAAAGGGTTAAGGCTCACCTGCTTTCGTGTTTTTCCATGTCTGGACAAGACA
GGGCAGGTAACTGGTCAGCCACGCTTTGATTATCGGTAGAATTTTGCATCTCAGTTTCATTCAGGTTCTCCACACCAGAA
GAAACCCAAT-CCAAAAAGGCCACAGATTAACCTAAGCACTTTGCTAAAAAAAACAGATTAACCTAAGCACGCATGTA--
ACATGTTAAACGTTTGAGTGTTAAGCTAGTTCTCGTTTCTATACTCATTTTTACACAGTTCAAGCCAGATACAACACTAC
TACGACCATTACCAATTGGTAGAGTACTATCTGCCCAAGCTACAACAGAAGAGAGGACGCGGCTCGGCTCGCCTACTAGA
CCGTGTTAAGTTTTCGGGCAAATTGCGCGCGACTTTGACGAATTCCATTCATACTCACCATGTTTGTATATTGGCATATA
TAT--GCCCAGCTGCTGAACATTTCTTTCTCCAATTTGATTTGACTACGGGATGTGTGCGCTGCGCGCCTGAAAAAATAA
CCCCCGGTGGGTGCTA---TGCTATGCTGGTTCAAAGTTTCAAACCTGGTGACTGGACCATCCATCGC-CCGGGCTGTCC
CTTTATATAACCACCGCGTCCAAGAATCAATCATCGTCGTCTACTCGACTCATCCATCCATC---------ATCCATCGC
CCGAATTCCTCCGTCTCCCTCCCACCCATCGACTCCCGCGCGCGCGCTCGCAGAAGAGAAAGGCGTCGACCGGATCGGGA
TGAAGCAGGAGAAGGGGCAGGGCGGCGGCG---GGAGGAAGCTGGGGCGGTGGCTGGGGGCGCCGGTGCGGGCGCTGTCG
CGGGCGTGCGACTCGTACGTGCGCAAGATGTCGGCGTGCGCGGGGGCCATGCCCACGCAGTACGCGGGCGCCATGGGCCG
CGGCGGGGCCGGGGCCATGCACATGCAGGCGGCCACCTTCAGCTCGCGCTCCACGCGCCGGGGGGACGACGACGTCAGCG
AGTTGGTCCGCGCCATGTCCCAGCGCCAGCAGGGCAGCAGCGCCTCCCCCGCGGCCGCGGCCGTGCCGCCCAGGAGCCGG
AGCGTGGGGGTGGGCAGGATCGACGAGGACGCGCCGTGCGACTTCGGCGCCGACGCCGGGCGCGTCGGCCTGCCCCCGCC
GGCCGTGCGCAGGAGCCGCAGCGCCGCCGTCGGGAGCGGCCTCCCGCCGCGCGTCGGCGGGGGCGGGGGTTTCGGCGCCG
CGACGATCAAGAAGGT---CCC---CGCTGCCGGCGTCGTGCACGGCGGCTAACCGAGA----CCGGCCGGCCGGCCGGC
GCGTGCGATGGCGCAGCACACGTCGTACGTGTGCCCGCGTGTACGGAC----AGTCACTGCACGCGGCCACGGTGTGT--
--------TTTTTAGTCTTTTCGGTCGCATCTTTCGTCTGGCAGGATGGTTTTGGCCTTTCTTTTCCCCGTGTGGT----
---TGCGTGAATTGTACATTTT--AGTGGTTAGATTTTGTCGGGACCTGGAAGCAGTTAGCAGCCGTGCATAGCATACTG
CATACACAGCCCAGATCG-ATGCTGTTAATTGGTAGAGTACACATCCCAGAAGCATGTGACGTGCCACGTACAGTAATGT
AT----ATCCAGAGTGCAATCCAAACAAGTTCGGTGGGTACATGTGCAATGCATACACACGCTGACATTTTAAAATTTCG
T-------------------------------------------------------------------------------
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-------------------------------------------------GAACATGACATGCTGAAATTATACTATGCTC
GTGTCATACGTACA-------CAGACAGGCGTGGCCTCTGACTTTCGGAGCAGCGAGTCAGTGCGGTGCATTCGTGCT--
----CTGGGACTGGGAGGTGTCGCCGTCGATTGATACATAGATAATCGTAATCATAATCATAACCCAATCCCGTACG--T
ACGTACATTGACTCGTCTAACTCGCACCGGCGTGCGTTGACATTTGGCTCGTGCTTACGCGTC-----GGTTGGGTTGGG
TGTCTGTTTGCTCTTGGGCAAGCGCATGTA---------------------CCGGGGCCGGGAGAGAAATGGACAGCTCA
GGTTTGTTTGGGAGCGATGATTGACGGAAGAACTGCCGTGTGCCGTTCGTTTGGATGTATATGGAGATTTTTCTCTGGTA
TATCTTGTCAATGCACCTTATTAGAGCATCTACAGCCGGACATAACAAATATGACCCTTTAAATGCCAGCGGACACGCAT
GTTCAATGACCGGGCGTGCCCATTTTGCGCCTCTGTTTATCCGTCCGCGCAACCACACTCCTCTTTTTTCTTCTCATATA
TCCGGTCGCTTGCACGTAATTGGTGGAGATAAAGAGAGAGAAATAAAAAAATAA
>chr1D_1
GCCCATGTCTGCGTCTGCTCTCATTTTATCCGCACAACAAAGACGCCATCACGTTTCTTAATCAAACAGCTCTTCCTTCT
TTCCTCAAACCACGCCCTTGCTTACATGCACTTCAATATAATTTCCCCTAAAAATACTCCTATCTAACATGATTTGGTAA
AAAACAGTG---CTAGTAAAAGCTAAGTTTAGCTCAGGAGTATACAAACAGCATTGCTCAATCCAGTTAAAGC-------
----------GCTCG------------AAAAAGGGATAAGGCTCACACGCTTTCCTGTTTTTCCATGTCCGGACAAGACA
GGACAGGTAACTGGTCAGCCACGCTTTGATTATCGGTAGAATTTTGCATCTCAGTTTCATTCAGGTTCTCCACACCAGAG
GAAACCCAATACCAAAAAGGCCACAGATTTAACC---CACGCATGGATGC---------------------------AAC
ACATGCTAAACGTTTGAGTGTTAAGCTAGCTCTCGTTTTTATACTCATTTTTACACAGTTCTAGCCAGATCCAACACTAC
TA----CTGCTGCTACAAAG-GAGTACAAACTGCCCAAGCTACAACAGA--AGAGGACGCGGCTCGGCTCGCCTACTAGA
CCGTGTTAAGTTTTCGGGCAAATTGCGCGCGACTTTGACGAATTCCATTCATACTCATCGTGTTTGTATATTGGCATATA
TATAAGCCCAGTTGCTGAACATTTCTTGCTCCAATTTGATTTGACTACGGGGTGTGT---GTGCGCGCCTGAAAAAATAA
CCATCGGTGGGTGCTACTATGCAATACTGGTTCAAAGTTTCAAACCAGGTGACTGGACCATCCATCCATCCGGGCTGTCC
CTTTATATACCCACCGCGTCCAAGAATCAATCATCGTCGTCTAC----------------TC---------ATCCATCGC
CCGAATTCCTCCGTCTCCCTCCCACCCATTGACTCCCCCGCGCGCGCTCGGAGAAGAGAAAGGCGTCGACCGGATCGGGA
TGAAGCAGGAGAAGGGTCAGGGCGGCGGCGGCGGGAAGAAGCTGGGGCGGTGGCTGGGCGCGCCGGTGCGGGCGCTGTCG
CGGGCGTGCGACTCGTACGTGCGCAAGATGTCGGCGTGCGCGGGCGCCATGCCCACGCAGTACGCGGGCGCCGTGGGCCG
CGGCGGGGCCGGGGCCATGCGCATGCAGGCGGCCACCTTCAGCTCGCGCTCCACGCGCCGCGGGGACGACGACGTCGGCG
AGCTGGTCCGCGCCATGTCCCAGCGCCAGCAGGGCAGCGGCGCCTCCCCCGCGGCCGCGGCCGTGCCGCCCAGGAGCCGG
AGCGTGGGGGTGGGGCGGATCGACGAGGACGCGCCGTGCGACTTCGGCGCCGACGCCGGGCGCGTCGGCCTGCCGCCCCC
GGCCGTGCGCAGGAGCCGCAGCGCCGCCGTCGGGAGCGGCCTCCCGCCGCGCGTCGGTGGCGGCGGCGGGTTCGGCGCCG
CCACGATCAAGAAGGCTGCCCC---CGCCGGCGTCGTCGTGCACGGCGGCTAGCCGAGACCGGCCGGCTGGCCGGCCGGC
GCGTGCGATGGCACAGCACACTCTGTACGTGTGCCCGCGTGTACGGACGGACAGTCACTGCACGCGGCCGCGGTGTGT--
--------TTTTTAGTCTTTTCGGTCGCATCTTTCGTCTGGCAGGATGGTTTTGGCCTTTTTTTT-CCCGTGTGGTTGTG
TCTTGTGTGAATTGCACATTTTCTAGTGGTTAGATTTTGTCAGAACCTGGAAGCAGTTAGCAGCCCTGCATAGCATACTG
CATACACAGCCCAAATCAAATGTTGTTAATTGGTAGAGTACACATCTAAGAAGCATGTGACGTGCCACATATAGTAATGT
GTATCGATCCAGAGGCCAATCCAAACAAGTTCGGTGCGTACG-----------------------CATTTTAAAAAATTT
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-----------------------------------------------GAGAACATGGCATGCTGACATTATGCTATGCTC
GTGTCATACATACACTGTGGATAGACAGGCGTGGCCTCTGACTTTCCTAGCAGCTAGTCAGTGCGGTGCATTTGTGCT--
----CTGGGACTGGGAGGTGTCGC--------------------------------------------------------
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>chr1A_1
GCCCATGTCTGCATCTCCTCTAATTTTATCCGCACAAC-AAGACGGCATCACGTTTCTTAATCGAACAGCTCTTCCTTCG
TTTCTCAAATCACCCCCTTGCTTACATGCACTTCAATATAATTTCCCCTAAAAATACTCCGATATAATACGATTTGGTAA
AATGTAGTACTACTAGTAACAGCTAGGTTTAGCTCAGGAGTATACAAACAGCATTGCTCAATCCAGTTAAAGTTAAAGTG
CTCAAAAAAGGCTGG------------GAAAAGGGACAAGGTCACCCGCTTTTCCTGTTTTTCCATGTCTGGGCAAGACA
AGACAGGTAACTGGTCACCCACGCTTTGATTATCGGTAGAATTTTGCATCTCAGTTTCATTCAGGTTCTCCACACCAGAA
GAAACTCAATTCCAAAAAGGCCACAGATTAACCTAAGCACGCATGGGTGC---------------------------A--
ACATGTTAAACGTTTGAGTGTTAAGCTAGCTCTCGTTTTTATACCCATTTTTACACAGTTCAAGCCAGATCCAACACTAC
TATGTACTGCTGCTACCGAG-GTGTGCAAACTGCCCAAGCTACAACAGAAGAGAGGACGCGGCTCGGCTCGCCTACTAGA
CCGTGTTAAGTTATCGGGCAAATCGCGCGCGACTTTGACGAGTTCCATTCATACTCATCATGTTTGTATATTGTCATATA
TAC--GCCCAGTTGCTGAACATTTCTTGCTCCAATTTGATTTGACTGCGGGGTGTGTGCGGTGCGCGCCTGAAAAAATAA
CCCCCGGTGGGTGCTA---TGCTATGCTGGTTCAAAGTTTCAAACCAGGTGACTGGACCATCCATCCATCCGGCCTGTCC
CTTTATATACCCACCGCGTCCAAGAATCAATCATCGTCGTCTAC----------------TCGACTCATCCATCCATCGC
CT--------------------CACCCATTGACTCGCAGAGG------------AGAGAAAGGCGTCGACCGGACCGGGA
TGAAGCAGGAGAAGGGGCAG------GGCGGCGGGAGGAAGCTGGGGCGGTGGCTGGGCGCGCCGGTGCGGGCGCTGTCG
CGGGCGTGCGACTCGTACGTGCGCAAGATGTCGGCGTGCGCGGGGGCCATGCCCACGCAGTACGCGGGCGCCGTGGGCCG
CGGCGGGGCCGGGGCCATGCGCATGCAGGCGGCCACCTTCAGCTCGCGCTCCACGCGGCGCGGGGACGACGACGTCGGCG
AGCTGGTCCGCGCCATGTCCCAGCGCCAGCAGGGCAGCGGCGCCTCCCCCGCGGCCACGGCCGTGCCGCCCAGGAGCCGG
AGCGTGGGGGTGGGCACGATCGACGAGGACGCGCCGTGCGACTTCGGCGCCGACGCCGGCCGCGTCGGCCTGCCGCCCCC
GGCCGTGCGCAGGAGCCGCAGCGCCGCCGTCGGGAGCGGCCTCCCGCCGCGCGTCGGCGGCGGCGGCGGGTTCGGCGCCG
CGACGATCAAGAAGGC---CCCAGCCGCCGCCGCCGCCGTGCACGGCGGCTAGCCGAGAGCGACCGGCCGGCCGGT----
--------------------------------------GTGTACGGAC----AGTCACTGCACGCGCAGCAGCTTAGAGC
CCGGTGTGTTTTTAATCTTTTCGTCCCTGTCAA--GTGTGGCAAGATGGTTTTGGCTTTTTTTTT-CCCGTGTGGT----
---TGTGTGAATTGTACATTTTCTAGTGGTTAGATTTTGTCAGGACCTGGAAGCAGTTAGCAGCCGTGCATAGCAAACTG
CATACACAGCCCAAATCAAATGTTGTTAATTGGTAGAGTACACATCTCACAAGCATG-------CCACATCTAGTAATGT
GTATCGATCCAAAGGCTAATCCAAACAAGTTCGGTGTGTACACGTGCGGTGCATACACTTGCTGACATTTTTAAAATTTT
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-----------------------------------------------GGGAACATGGCACGCTGACATTATGCTATGCTC
GTGTCATCTGTCATGCGTACACTGTA--GGGTGACCTCTGACTTTCCTAGCGGGGAGTCGGTGCGGTGCATTTGTGCT--
----ATGGGACTGGGAGGTGTCGCCGTCGATCGATACATAGATAATCGTAAT------CATAACCCAATCCCTTACG--T
ACGTACATTGACTCGTCTAATTGGCACCGGCGAGCGTTGACATTTGGCGCGTGCTTACGCGTCCGTTTGGGCTGGGCGTT
T---TGTTTGCTCCTCTTTTTTTTTTTGAAACAGGCAAAATTTTGTTTGCTCCTGGGACGGGAGAGAAATGGACAGCTCA
GGTTTGTTTGCGAGCGATGATTGATGGAAGAACTGCCGTCTGCCGT----------------------------------
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>chr1A_1804
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---------------------------------------ACACATCTCACAAGCATGTGGCGTGCCATGTACAGTAACTT
AT----ATCCAGAGTGCAATCCAAACAAGTTCGGTGCGTACATGTGCAATGCATGCACACGCTGACAACTTTTTAGTTTC
GAGAACATTCAAAACGAGGCAAAAGATTTGCCGTTTTCATTGATTAAGAAGAAGAGAGTTTCCCTAATAATTAAAAGAGA
ATCGGGCGAAAATCTAAATTACAAACCCCACACAGGGCATGTGCGGATGATCTGGCCACAGACAAGATCACAACACAACC
GTCGAGAGGAAGCACCGAGCAACAAAGCAACGCCAAACAGTAGGTCGCGGTGTCGAGGACATGTCAGCTCTGATTTTGCT
GACGAGCTTCACAGAAAAAGTTGCAAGCCTCGCATCGACATTCTTTTTTTGATAAAAGAGAGCTTGCCTCTCCGATTTCA
TTTATAAAAATCAGATGTTCACAGACTCCAGGACCGAACTCGCACCAACAATCTGACGATGCTATGTTAAAGGAGGGATC
CATCCCTCCCTCCTCCCACACAGCAGCATGTCAAGATTGGCTAAATCCCCAGCGCCAAACAGCGCCATAGAAAACCAACA
TAGCTAGCGTTAAAAGTTCTACTTGCTATTACATAGAGGGTTATAAGTCATTGCCATCATAGGCCAGAAGTTCAGATCAC
AACCCAAAAGGAATGGAAAGGAGAAAAACAAAAGAGCAAGAGGCAGCACAGAGAAGATAAGCTTCAGCATATTCTGATCT
CCAGGAGCCTCCCAGTCTTGAAACTCCAGTCGTCCATCCACGCGTCGCTTTGAAAATCTCCGTGGCCACCTGCTCAACTT
GATTTACGCCCTCCTTCGTGCGATCTTTCTTCCTTGGTTTTTCCGCAATACACACCATTCATGCAAGTTCTTAATGATTT
GATTTACAGGAACACAGGGGCCAATAACCCCGTGATTATCAAAAACTAGTCTATTTCTCAGTTTCCACATTGTCCAAAGC
ATAGCCGATATACCAACTGTCATAAGGTTCTTATCATTTTTTTTTCAAATTTGTTTATCCGTCTGCCAAATATATCATTG
ATTTTATTAGGAACATAATGTATGTCAAAAGAACATTTCATAATTATCCACCGCATTTTAGCCATAGAGCAATGTACAAA
TAAATGTTCTATATCTTCCTCTCGCCCACAAAAGGAACATTTTGTATCCTCCTGCCATCCTCTTTTTTTTCAGGTTTTAC
TTGGTAAGAATACTTTTCCTCGGCAATAGCCACAAGAATACCTTGATCCTGGGGGGGGGGGGGCATTTTTGTTTTCCATA
GGAATTTATATGGATAACGTAGCCCATTTTGAATCAAGTATCTATAGCACGTTTTGACAGTGTAATTACCATCTCCAGAC
AGATTCCATTTAATCTTGTCTTGGATTTCATCAACCGTCACACTCTCACACACCTCTTTTATGTGCTCCCATAGATGCAG
GGATTCCCCACATAACGATCTTCTAAAGCTAACTTTATCAAGCCCTTTTTCCAAAACATGAGCCATCGATTTTTCCTTAT
CAAAACATGTGTTGTAGATGTGTGGATAGCTATCTTTTAAAGCTTTAGGACACCTCACACTGACCTAGTCCAGCGCAACC
TCCGGAGAGCAACACCCGCTGAAGACCGCCCTCATTGAGTCATCATTGCCTCAGTGGCCCTGCCACCCGCGGCTTCGACT
TCTTTGTCATAGCCAGAAACAAGCATAGGCACCAGACCTTCGACATCAGAAGAACAAGCCGCGACCCGGCTCTGCTTGTC
ACCATCGTGGTTGCCACAGGCGTTGCAACGCCACAACAACCTCACCGTTGACCGGGCACCTGCTGACCATGATGATGTGC
ACGTCCAACGTCCAGGAAGCATAGATAAGACCAATAACTCCAAAATTGCGCCCCAAAGAGGAAATACGACATTGAAGACG
ACGCCACCGCCTGATCCAATCAAGATCTTGACTTTGGCCCGAGAGAAGAGGACATGACATGCTGACATTATACTATGTTC
GTGTCACACGCACACTGTAGGCAGGCACGCGAGGCCTCTGACTTTGGGAGCAGCGAGTCGGTGCGGTGCATTTCTGCTCT
GGGACTGGGACTGGGAGTTGTCGCCGTCGATCGATACATAGATAATCGTAT--ATAATCATAACCCAACCCTGTAAGTAT
ACGTACATTGACTCGTCTAATTCACACCGGCGTGCGTTGACATGTGGCTCGTGGTTACGCATCCGTTGGGTTGGGTTGGG
TGTCTGTTTGCTCTTGGGCAAGCGCATGTA---------------------CCGGGACCGGGAGAGAAATGGACAGCTCA
GGTTTGTTTGCGAGTGATGATTGATGGAACCATTGCCGTGTGCCCTTCGTTTG---------------------------
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>SNPs
----------------------------------------------------------S---------S----S------
---------------------S------------S----------------------------S----------------
--------S-----------------------------------------------------------------------
---------------SSSSSSSSSSSS--------S-----------S------S-------------------------
--S-----------------------------------------------------------------------------
----------------------------------------SSSSSS-SSSSSSSSSSSSSSSSSSSSSSSSSSSSSS---
-----------------------------S--------S-------------------------------S---------
--S-SS-SSSSS-S-SS-SSS------S-S--------------------------------------------------
---------------------------------------------------------S----------------------
-----------S---------------S-----------------------S--------S-------------------
----------------------------------------------S-------------------SS------------
---------S----------------------------------SSSSSSSSSSSSSSSS--------------------
-----------------------------S-------S------------S-----------------------------
----------------------------------------------------------S---------------------
------------------------------------------------------------------------S-------
--------------------S---------------------------------------S---------------S---
--S-----------------------------------S-----------------------------------------
--------------------------------------------------------------------------S--S--
------------------------------------------------------------S-----S--S----------
---------------S------------S----S------------------S---------------------------
------------S--------SSS---------------------------------------------S----------
------------------------------------------------------------S----S--------------
-----S-----------------------------------S--------------------------------------
-------------S---S----S-----------------------S---------------------------------
------------------------------------S--------------------------------------S--SS
S-------------------------------------------------------------------------------
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-----------------------------------------------------------------S--------------
------------------------------------------------------------------------S-------
-------------------------------S--------------------S---------------------------
--------------------S-----------------------------------------------------------
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----------S-------------S----------------------------SSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
>forward_264
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----TAAAGCGCTCGAGAAAGGCT--------------------------------------------------------
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>reverse_1802
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-----------------------------------------GGGACCTGGAAGCAGTTAGC-------------------
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