>input_sequence_43805
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-------------------------------------------------ATGACGAGAACCGGATCAAGCGCCAAGAACA
AGGAATCCGTCCAGGTGAGCTCGGATTCATGTCGATCCCCGTTTCTTGATGGTTGCTGTATGGCATAGCAAGATACCAAT
TCGCGAGTTCCTGAATATTTCTCTGGCATCGACAGTTCTTGCGCGCGACAGTCATCTAGTTCCCCGTTTCTTGATGGGTG
TTGTATGGTAGTTCCTGAATCTTTTTCTTTCTCTGGCGTCGACCGTTCTTGCGCCCCGTTTCAATCGGGAGTTTCTTGTG
CTGATCGAACGAGCCGTAACCAAGATTTCGTTCCCATCAATCCAATTTTTTGGTGCGCTCGAATTGGTCTCCCCTCGTTT
GAGTTTCTCAAATCACCCCTTCTCGTAATGTTTTCTTTCGTTCTTGGAACTGGCCGTGCTTAATCGCGTTTCAATACTTT
CCCTCTAATTGCTGTTTGCTTGTCTTTCACTGATCGGCTAGTTGGATGTTTCAATTTCTTTTGCAGACCGAGATCGACAT
GGAATCGAAGAGGTCGTCAACGGCGGCGGGGCACATCGCTGACCTCCCCGAGCAGATCTGGTGGGCAATCCTCGAGCGAC
TCCCGCCCAAGTCAGTCCTGCGATTTCGTGCTGTCTGCAAATCTTGGCTCAACCGCATCAGCAACAACAATTTCCTCGAA
GAATACCATGGGCGCCAAAAGCCACAGCACCTGATCGTCCCAGTCGATCCAGACAACACCAGGCATAAGATGAGTCACCG
TGTAGATGCTGTTGATTTCCAGCACCCCGAGGACGGTTTCCGCTCCATAATCAGCTTCACCAGCTTTGGAGTATTTGAGG
TCTTTGATCCAGATGAAGAAACCGCAGAGCATCTAATGTCTGCCGTACAGGGCTCAATTGGAGGCCTCCTCCTCGTCTCC
TTCGAGCACAGGTGCTATATCTGCAACCCAGGTACAAAAGAATCACGCCGCCTCCCACAGCTGGATGACCATGAAATCTT
GGGACTGTACATGCTGGGCGATGAGTTTAGGGTCCTCTATCTCAAGGAAGATGAGGAGGGTGATGCCGAATTCTTCGTCC
TGTCAGTGCATCAATCTCTTAGCAATAAATCCATTGGGTACTGCCCTGTGTCGCCCGCGGCGAATCTGCCAGAAATTGAT
GGACCGAAGAAGCTGGGGTTCAGCCTGCAGAGTTCGGCAATTGAGCCGCCTGCCATGGTCGGGGCCAACCTTTATTGGGC
ACCGTTGGAGCTGTGGCCACGGGAAATTACAGTTTTTGATTACCAGTCTGAGCTTTTTCACTGGATGAAGCTTCCCAAGA
CCAAGGAGCGCTCCAAGAGCAACACCAACAATACGATGAAGGTTCTTGAGTTGGACGGCGAGTTGGGGTTGTCTCTTCAC
AGGAGGGGTGAATCAAGTGTTGAGCTATGGGTATTAGATTCTCTGAAGATGTGGGAGCTCAAACACAGTATTCAGTTGCC
GGTTGCAGATATCACTGGCTTTGGAGCACATACCTGGGATCCCTTTCTTATGTCCATGGATGGAGGTGTGATCGTAAGGT
GCGTGTCCCAGGGCCAGGGCCA------GGGAGGGGAAGGCCAACAAGGCACTCAGGCGCTCCTGTACTGCAACAGACAC
GGAGAGCTAGCGCCTGGACCACTGTTCGTAGGCGATTTGGCTGCGCCTGCCATACACCTATTCAAGCAAAGCATTAGGCG
ACATGCCCTGTTCCAGGGGCATCAGCAAGATGCTACGTCTCCCTTGTCACTCTTCCGGGACCTCTAG-------------
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>chr4A_1_TraesCS4A01G013800
GTGGCCCGTGGGAATGCCGGGTCGGGTCCTGTGCCGCCGAGACCAACACGGCGGGCTCCCACCGGCCATCTCAGCTGGCG
AGGGGCATCGAGCGCGCCGTCGTCTGCACTGGACTACTGGAGTGGACGAGGTGGCGTCG---------GTGGAGCGCGCG
CGCCTGCACCAACCCGCCCGGTCCTTCCTTGTACACGGCACGGCAGCCTGCAGTCCTGCACTGCACTGGGCGCCAAGCGG
ACAACATACTGGCCGGTGTTGGACAGTCGACACAGCTGCTCATCCCCGGCTCATGGTCATGGAGGAGCACGATGCAATGC
CATGCTCTGCCCTAGGGGCTGTGGCGATTGTGTCTGACGACAACAAGGGGAAATTACACTACAGCCGTCTCTCTGTTCTG
ATGGCTGCCGCACCCTGCTATTCAGTTGGCCCGCGATCAGAGTAAGCTTCGCTTCCCACAATTTCCCACAACCGATTTCC
ATTGTCCTCACAAAATAACCGCCTTCCTCGCGCGACTGCGCTCCCGTCCGTGCTCTATATATATGTAGGACAGAACCGGC
TCCTCTACCGTGCAGCGGGCACGGCAGGGATGCTACAGTATCCCGGGACAGTGTAAATACAGAAGGCACGGCAGGATGAC
TGTAGCCGGAATTACTGTTTGCATACTGTAGCGGAATATACTGTTTCGGTTTCTGTAGCATTTGCACTGTTTGCACACTG
TAGCAAATAGGTCTGAGCCATTTATACTGCATCTAACAGCTGATAGATGCCCAAAGGCAGGGTACTGTAGCGTCCCTGCC
GTGCTCACTGCACGGTAGAGGAGCCGGTTCCGGCACTTGACGGGGCGAGCTCCCCCTCCCCCTCGATTTCCCCAACAACT
ACAGGGCGAGCTCCCCCTCCCCCTCGATTTCCCCACAGCGCACGCAGTTGACGGGACGACACGAACCCGAGCGAGCACCA
AGAACAAGGAATCCGTCCTGGTGCCCCAGCAGCGCAGGCCCTTGGCGGGATGACGAGAACCGGATCAAGCGCCAAGAACA
AGGAATCCGTCCAGGTGAGCTCGGATTCATGTCGATCCCCGTTTCTTGATGGTTGCTGTATGGCATAGCAAGATACCAAT
TCGCGAGTTCCTGAATATTTCTCTGGCATCGACAGTTCTTGCGCGCGACAGTCATCTAGTTCCCCGTTTCTTGATGGGTG
TTGTATGGTAGTTCCTGAATCTTTTTCTTTCTCTGGCGTCGACCGTTCTTGCGCCCCGTTTCAATCGGGAGTTTCTTGTG
CTGATCGAACGAGCCGTAACCAAGATTTCGTTCCCATCAATCCAATTTTTTGGTGCGCTCGAATTGGTCTCCCCTCGTTT
GAGTTTCTCAAATCACCCCTTCTCGTAATGTTTTCTTTCGTTCTTGGAACTGGCCGTGCTTAATCGCGTTTCAATACTTT
CCCTCTAATTGCTGTTTGCTTGTCTTTCACTGATCGGCTAGTTGGATGTTTCAATTTCTTTTGCAGACCGAGATCGACAT
GGAATCGAAGAGGTCGTCAACGGCGGCGGGGCACATCGCTGACCTCCCCGAGCAGATCTGGTGGGCAATCCTCGAGCGAC
TCCCGCCCAAGTCAGTCCTGCGATTTCGTGCTGTCTGCAAATCTTGGCTCAACCGCATCAGCAACAACAATTTCCTCGAA
GAATACCATGGGCGCCAAAAGCCACAGCACCTGATCGTCCCAGTCGATCCAGACAACACCAGGCATAAGATGAGTCACCG
TGTAGATGCTGTTGATTTCCAGCACCCCGAGGACGGTTTCCGCTCCATAATCAGCTTCACCAGCTTTGGAGTATTTGAGG
TCTTTGATCCAGATGAAGAAACCGCAGAGCATCTAATGTCTGCCGTACAGGGCTCAATTGGAGGCCTCCTCCTCGTCTCC
TTCGAGCACAGGTGCTATATCTGCAACCCAGGTACAAAAGAATCACGCCGCCTCCCACAGCTGGATGACCATGAAATCTT
GGGACTGTACATGCTGGGCGATGAGTTTAGGGTCCTCTATCTCAAGGAAGATGAGGAGGGTGATGCCGAATTCTTCGTCC
TGTCAGTGCATCAATCTCTTAGCAATAAATCCATTGGGTACTGCCCTGTGTCGCCCGCGGCGAATCTGCCAGAAATTGAT
GGACCGAAGAAGCTGGGGTTCAGCCTGCAGAGTTCGGCAATTGAGCCGCCTGCCATGGTCGGGGCCAACCTTTATTGGGC
ACCGTTGGAGCTGTGGCCACGGGAAATTACAGTTTTTGATTACCAGTCTGAGCTTTTTCACTGGATGAAGCTTCCCAAGA
CCAAGGAGCGCTCCAAGAGCAACACCAACAATACGATGAAGGTTCTTGAGTTGGACGGCGAGTTGGGGTTGTCTCTTCAC
AGGAGGGGTGAATCAAGTGTTGAGCTATGGGTATTAGATTCTCTGAAGATGTGGGAGCTCAAACACAGTATTCAGTTGCC
GGTTGCAGATATCACTGGCTTTGGAGCACATACCTGGGATCCCTTTCTTATGTCCATGGATGGAGGTGTGATCGTAAGGT
GCGTGTCCCAGGGCCAGGGCCA------GGGAGGGGAAGGCCAACAAGGCACTCAGGCGCTCCTGTACTGCAACAGACAC
GGAGAGCTAGCGCCTGGACCACTGTTCGTAGGCGATTTGGCTGCGCCTGCCATACACCTATTCAAGCAAAGCATTAGGCG
ACATGCCCTGTTCCAGGGGCATCAGCAAGATGCTACGTCTCCCTTGTCACTCTTCCGGGACCTCTAGATCAGCAACCTTT
CAGAGAGATTCAGCCTGCTGCCAGGTGAGGTGACCGAGCTATGTTTCTGAATATC-GCTCCCTGTATTTTAGTTGCAGCG
TCTAGTGTTTGTTGACGTTCAAACTGTGATTAGCTTTTCTCATCACACGTTCAGATATACTCATCACTGTGTTCTTTTTT
TCCTGTTCT--TAGGTGATTTGCTTGCACCTGCTCCAGGAAAGTATTATGCGACATGATATGTTTCCAGGTGCATAAGGA
GGAGGATGCCGTTTCACCACTGCTTCAGGATTTGCAGATCACAGCTCCTACTTGCCGTGCTTTCTTGTATATTGGGCCCT
CTGATGCTGATGTCTCACTAATGTTCCAAGATCTGTAGATTAGAGCTTGTGCCTGTCAATGTATTTTTTGGAGATTGACC
CTGCACATGATTTCCTTTCTGAATATCCCTGTATTGTAATTGCAACGTCTAGTGTTGACATTCAAACTGATTAGCTTTTC
TTATCAAGGTTCAGACTTCAAAAATACTGATTTTCTTCTTCTCTTCGGAAGGGGTTTCTTTTGGTATGCAGTTATCCCGT
GTTATGCTGGAAATTGCTTGTTTCCCAAATATGATTCGTGAAAAAATTGCACCTGTCCTCAGCATGATTATGAATGTCTT
GGGTTCTAGAGCTAAACATC-TTTTTTTTACGTTTTAAATAGTTTTTCTAGAAAATGTTTTAAAATAGTTTTTTACTGAC
TGCATTTGCAGATCGGAAGTTGAATAGATGGTGCTTACAACAAATTCATGTCCCATTGCTTAGAGCAACTCTACCAGGTC
ACTTAAAACCCCTAAGAGTAACTCCAACAGCTTTCG-CCCTATCTCTAAAATAATCGTCATTTACGGAAGGTTGGCAAAA
GACCCTCCCAACAATTTCCGTAAAGTGTCCATAACTTTAGAGAATCCTATAAAAGTAGGAGCCTTTTCTCATCTTCCTGT
ATCTTTTTGACGGGCTAGTAAACACCCGAAAC
>chr4D_1
GTGGCCCGTGGGAATGCCGGGTCGTGTCCTGTGCCGCCGAGACCAACACGGCGGGCTCCCACCGGCCATCTCAGCTGGCC
AGGGGCGTCGAGCGCGCCGTCGTCTGCACTGGACTACTGGAGTGGACGAGGTGGCGTTGGCGGAAGGCGTGGAGCGCGCG
CGCCTGCACCAACCCGCCCGGTCCTTACTTGTACACGGCACGGCAGCCTGCAGTCCTGCACTGCACTGGGCGCCAA----
-----------GCCGGTGTTGGACAGTCGACACAGCTGCTCATCTCCGGCTCATGGTCATGGAGGAGCACGATGCAATGC
CATGCTCTGCCCTAGGGGCTGTGGCGATTGTGTCTGAGGACAATAAGGTGAAATTACAGTACAGCCGTCTCTCTGTTCTG
ATGGCTGCCGCAGCCTGCTATTCAGTTGGCCCGCGATCAGAGTAAGCTTCGCTTCCCACAATTTCCCACAACCGATTTCC
ATTGTCCTCACAAAATAACCGCCTTCCTCGCGCGACTGCGCTCCCGTCCGTGCTCTATATATATGTAGGACAGGCACGGG
AGGAACTCCCCAACAACGCAAT----------------------------------------------------------
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---------------------------------CACTTGACGGGGCGAGCTCCCCCTCCCCATCGATTTCCCCAACAACT
ACAGGGCGAGCTCCCCCTCCCCCTCGATTTCCCCACAGCGCACGCAGTTGACGGGACGACACGAACCCGAGCGAGCACCA
AGAACAAGGAATCCGTCCTGGTGCCCCAGCAGCGCAGGCCCTTGGCGGGATGACGAGAACCGGATCAAGCGCCAAGAACA
AGGAATCCGTCCAGGTGAGCTCGGATTCATGTCGATCCCCGTTTCTTGATGGGTGCTGTATGGCATAGCAAGATACCAAT
TCGCGAGTTCCTGAATATTTCTCTGGCATCGACAGTTCTTGCGCGCGACAGTCATCTAGTTCCCCGTTTCTTGATGGGTG
TTGGATGGTAGTTCCTGAATCTTTTTCTTTCTCTGGCGTCGACCGTTCTTGCGCCCCGTTTCAATCGGGAGTTTCTTGTG
CTGATCGAACGAGCCGGAACCAAGATTTCGTTCCCATCAATCCAATTTTTTGGTGCGCTCGAATTGGTCTTCCCTCGTTT
GAGTTTCTCAAATCACCCCTTCTCGTAATGTTTTCTTTTGTTCTTAGAACTGGCCGTGCTTAATCGCGTTTCAAAACTTT
CCCGCTAATTGCTGTTTGCTTTTCTTTCACTGATCGGCTAGTTGGATGTTTCAATTTCTTTTGCAGACGGAGATCGACAT
GGAATCAAAGGGGTCGTCAAGGGCGGCGGGGCACATCGCTGACCTCCCCGAGCAGATTTGGTGGGCAATCCTCGAGCGAC
TCCCGCCCAAGTCAGTCCTGCGATTTCGTGCTGTCTGCAAATCTTGGCTCAACTGCATCAGCAACAACAATTTCCTCGAA
GAATACCATGGGCGCCAAAAGCCACAGCACCTGATCGTCCCAGTGGATCCAGACAACACCAAGCATAAGAGGAGTCACCG
TGTAGATGCTGTTGATTTCGAGCACCCCGAGGATGGTGTCCGTTCCATAATCTGCTTCACCAGCTTTGGACTATTTGAGG
GCTTTGATCCAGATGAAGAAGCCGCAGAGTATCTAATGTCTGCCGTACAAGGCTCAATTGGAGGCCTCCTCCTCGTCTCC
TTCGAGCACCGGTCCTACATATGCAATCCAGGTACAAAAGAATCACGCCGCCTCCCACAGCTGGATGACCATGAAGTCTT
GGGACTTTACATGCTGGGTGATGAGTTTAGGGTCCTCTATCTGAAGGAAGATGAGGAGGGTGATGATGAATTTTTCGTCC
TGTCAGTGCATCAATTTCTTAGCAATAAATCCATTGGGTACTGCCCTGTGTCGCCCGCGGCGAATCAGCGAGAAA---AT
GGACACAAGAAGCTGCGGTTCAGCCTGCAGAGTTCGGCAATTGAGCCGCCTGCCATGGTCGGGGCCAACCTGTATTGGGC
ACCGACGGAGCTGTGGCCAGAC---ATTACAGTTTTTGATTGCCAGTCTGAGCTTTTTCACTGGATGAAGCTTCCCAAGA
CCAAGGAGCTCATCAAGAGCAACGACAGCAAGACGATGAAGGTTCTCGAGTTGGACGGCGAGTTGGGGTTGTCTCTTCAC
AGGAGGGGTGAATCAAGTGTTGAGCTATGGGTATTAGATTCTCTGAAGATGTGGGAGCTCAAACACAGTATTCAGTTGCC
GGTTGCAGATATCACTGGCTTTGGAGCACATACCTGGGATCCCTTTCTTATGTCCATGGATGGAGGTGTGATCGTAAGGT
GCGTGTCCCAGGGCCAGGGCCAGGGCCAGGGAGGGGACGGCCAACAAGGCACTCAGGCGCTCCTGTACTGCAACAGAGAC
GGAGAGCTAGCGCCTGGGCCACTGTTCGTAGGCGATTTGGCTGCGCCTGCCATACACCTATTCAAGCAAAGCATTAGGCG
ATATGCCCTGTTCCAGGGGCATCAGCAAGATGCTACGTCTCCCTTGTCACTCTTCCGGGACCTCTAGA-----------T
CAGAGAGATTCAGCCTGCTGCCAGGTGAGGTGACCGAGCTATGTTTCTGAATATCAGCTCCCTGTATTTTAGTTGCAGCG
TCTAGTGTTTGTTGACGTTCAAACTGTGATTAGCTTTTCTCATCACACGTTCAGGTATACTCATCACTGTGCTTTTTTTT
TTTTCTGTTCCTAGGTGATTTGCTTGCACCTGCTCCAGGAAAGTATTATGCGACATGATATGTTTCCAGGTGCATAAGGA
GGAGGATGCTGTTTCACCACTGCTTCAGGATTTGCAGATCACAGCTCCTACTTGTCGTGCTTTCTTGTATATTGGGCCTT
CTGATGCTGGTGGCTCACCACTGTTCCAAGATCTGTAGATTAGAGCTTGTGCCTGTCGATGTATTTTTTGGAGAATGACC
CTGCACATGGTTTCCCTTATGAATATCCCTGTATTATAATTGCAACGTCTAGTGTTGACATTCAAACTGATTAGCTTTTC
TTATCAAGGTTCAGACTTCAAAAATACTGATTTTCTTCTTCTCTTCGGAAGGGGTTTCTTTTGGTATGCAGTTATCTCGT
GTTATGCTGGAAATTGCTTGTTTCCCAAATATGATTCGTGAAAAAATTGCACCTGTCCTCAGCATGATTATGAACGTCTT
GGGTTCTAGAGCTAAACATCTTTTTTTTTACGTTTTAAATAGTTTT-CTAGAAAATGTTTAAAAATAGTTTTT-ACTGAC
TGCATTTGCAGATCGGAAGTTGAATAGATGGTGCTTACAACAAATTCATCTCCCATTGCTTAGAGCAACTCTACCAGGTC
ACTTAAAACCCCTAAAAGCAACTCCAACAGCTCTCGCCCCTATCTCTAAAATAATGGTCATTTACGGAAGGTTGGCAAAA
GACCCTCCCAACAGTTTCCGTAAAGTGTCCATAACTTTAGAGAATCCTATAAAAGTAGGGGCCTTTTCTCATCTTCCTGT
ATCTTTTTGACGGGCTAGTAAGCACCCGAAAC
>SNPs
------------------------S------------------------------------------------------S
------S--------------------------------------------------S----------------------
--------------------------S-------------------------------------------------SSSS
SSSSSSSSSSS---------------------------------S-----------------------------------
-------------------------------------S-----S----S---------S---------------------
------------S-------------------------------------------------------------------
-------------------------------------------------------------------------SSS---S
SSSSSSS--SSSSSSSS-SS-SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS----------------------------S------------------
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----------------------------------------------------S---------------------------
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---S----------------------------------------------------------------------------
----------------S-----------------------------------------------------S---------
--------------------------------------S------S----------------------------S-----
---S-----------------S----------------------------------------------S-----------
------S---S---------S------------------------------------S----------------------
-----------------------------------------------------S--------------------------
--------------------------------------------S----------------S--------S---------
-------------------S-------------S---S----S---------S-----------------S---------
S-------------------S--------S-------------------S------------------------------
---------S---S---S--S-----S------------------------------------------------S----
------S-----------S-----------------------S----------------------SS-----S-------
---------------S--------------------------------------------------S--S-----SSS--
----SS---------S-------------------------------------------------------S--------
----SS-------------SSSSSS----------------S--------------------------------------
---------S-SS----------SS--S---S--------------S---------------------------------
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-------------------------------------S---------------------------------------S--
-----------------S--------------------------------------------------------------
-S------------------------------------------------------------------SSSSSSSSSSS-
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------------------------------------------------------S----------------S-S------
-SS-S-SS------------------------------------------------------------------------
---------S--------------------------------------------S-----------------------S-
---------S--S-----S-S------------------------------------S----------------S-----
---------S-----S--S----------------S--------------------------------------------
----------------------------------------------------------------------------S---
--------------------------------------------------------------------------S-----
----------------------------------------------S-------------S------------S------
-------------------------------------------------S------------------------------
---------------S--S-------------S----------------------S------------------------
-------------S---------------------------------------------S--------------------
---------------------S----------
>forward_610
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------------------------------TGCTACAGTATCCCGGGACA------------------------------
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>reverse_2007
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------GTACATGCTGGGCGATGAGT------------------------------------------------------
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>forward_792
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----------------------------------------------------AAAGGCAGGGTACTGTAGCG--------
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>reverse_2157
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----------------------------------------------------------------------------TGAT
GGACCGAAGAAGCTGG----------------------------------------------------------------
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>forward_2073
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-----------------------------------------------------AGGAGGGTGATGCCGAATTC-------
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>reverse_3050
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---------CGTTTCACCACTGCTTCAGG---------------------------------------------------
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