>input_sequence_55041
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---------------------------------------------ATGTTCGTGTTAGCAATATATAATCATTCAAATGG
GTTGTATTATGGATCTGAAGGTAGGTGTTGTATATTGGCTTTTCACACACATGCATCCATCCTATTACACCTGAGATATA
AGTCCCTAAATTTTGATTTGCATTGGACATGATAGATAAATTCCATTTAATTCTATGTCTATAAATCTCAAAATTAAGCA
GGTATATTTCATGGAACATAACTGGTTTTATCGTTTTGGGAATTAAGTTTGCATACTGTAATTGCAATATCTGCAGCTTT
AATCATTCTTTTCTCTAATCTTCAAACATTTACCTA--------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------CATGCAGCTAGCTACATGTTCCATATCAACAATACAAACTCAATGTTAGAACACTTAATTCCTCTTAAAGAA
CTACTGAAATCACCAGGTTTTCTGGCTGGTGATTGCTGTGTCTTTGGTGTGGAGATATTAAAAGTTGATGTCTTCCCTCA
TGAAAAGGAGGCTGTTGTGGTTCAGAAGAAGGCTCCCACGGTTCAGAACCTCTTCATCCAGAAGAACGGATTCGTCACAA
GGAACTGCACTTGACCATGAGCAATTTTCTGGAATTGAATCTGAAGCACTTTGTCCGCTCCGCCATGTTTGAAATTGACG
GACATAAATGGTATACCAAGTTACATCACTAATTTCGTGGTTTGTCTTAGCATTAAACCAATCAAATTACTGACACATTC
CAGTGTGTTAAACCTATCAAATTACTGACATATGCTTTCTGGGAACTCAATTATATTTTGTCACCACTGGACATGCTTGT
CAATATATTCACCTTTTCTGGTAAACCTGGAGTGTTTTTCCCCTCATG--------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
---------------------------------------TGTAGAACTTGATGGATATTTAACCTGTTTAATGTCAGGTA
CCTTGGCATCTATCCTCGTG------------------------------------------------------------
----------------------GTGACCCGTACAGCACGAGTTACCTCTCCTTGTACTTATGCATGGATGCTTCGGACAA
GCTCC---------------------------------------------------------------------------
-----------------------------------CTCCTGAATCTGGAAAGCTGGTTGAGTTGAGTTTATCCATCATGG
ACCAAAAGCATGGGCAACATTACACCAGAAAATCTCCAGGTTCGGCTCTTACCTTAGCTGCTACCAATGTGAAGTGACTG
ATATGTCCTATTTGAAGATGATCTTACCTAGTTTTGGTTGCAGCTCTTGTGGTGTTTGCGGGCGAATGTCGCTGGGGATG
GTCCAACTTCATTCCACTCAGCATATTCAGGGATCCATCCAGTGGCTACCTTGTACGGTCGTGCTGCATTGTCAAGGCAG
AGATAACTATCGTTGGTTCATCCAGTGGTGGCGAGGTCTTAGCTGATGGCCAGATGAATTGA------------------
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--------------------------------------------------
>chr1D_1_TraesCS1D01G151700
TGACGGCTGAGGTGATCTGGTTACGGTGGTTACTTGAGGATTTTGGTGTGTCTGCTACTACCTCGACTCCGTTACTGTCA
GACAGTACCGGTGCTATCAGTATTTGCGCGTGACCCGGTGAAGCATGAGCTCACCAAGCACATAGGTGTGGATGCCCACT
TTGTGCGTGCTGCTGTGCAGGATCAGACTCTCGCTCTTAACTATGTGCCCTCTGAGTTACAGTTGGCGGACTTCTTCACG
AAGGCACAAACNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTGTATAGTTCCTTTCT
GTACATCCCCATTGTATAAGGGGCTTTTCTGCACTTTACCTCACATGTATATGTTCCCCCACCTCCTAGGAGGACTGTAT
CTTCTCATCTTTTTAATGAAATGAAACGCAAAGAGTCCTTTGCGTTTTCTTGAAAAAAAAGTGTTTGTTTCTTTTGGGTG
GATAATTTGTTATCCGTGTACAGTTATTTAGTGGA-----TAGTCAAAAAATAAACTGATTCAACTAAGTCAATTTTTTC
CCGAGTGTTAATGGAGTCAAATTAGCAAGTAGCAGCCACAAACTCATTAGGGAACTGTCGGAAGCTGAAGCTTCATAGGT
TGCATGAAGTGGAATAGTTATGTTTTTTCTTACCTCAGTTATGACTTCTTGACTGACATGGTTTTTGCTCCTCAATTCAT
TTACTAGGTTTCTGCGAGTCACTCCATCACATACAAAATCCTTCGCTGTAGCTCCATATGTTGCTCTTTCTCTTGGCCTG
AGCGTAGGAAGTTTGGACTTGGAGCCAGATTACACTGTAGAGGCAATGTTCGTGTTAGCAATATATAATCATTCAAATGG
GTTGTATTATGGATCTGAAGGTAGGTGTTGTATATTGGCTTTTCACACACATGCATCCATCCTATTACACCTGAGATATA
AGTCCCTAAATTTTGATTTGCATTGGACATGATAGATAAATTCCATTTAATTCTATGTCTATAAATCTCAAAATTAAGCA
GGTATATTTCATGGAACATAACTGGTTTTATCGTTTTGGGAATTAAGTTTGCATACTGTAATTGCAATATCTGCAGCTTT
AATCATTCTTTTCTCTAATCTTCAAACATTTACCTA--------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------CATGCAGCTAGCTACATGTTCCATATCAACAATACAAACTCAATGTTAGAACACTTAATTCCTCTTAAAGAA
CTACTGAAATCACCAGGTTTTCTGGCTGGTGATTGCTGTGTCTTTGGTGTGGAGATATTAAAAGTTGATGTCTTCCCTCA
TGAAAAGGAGGCTGTTGTGGTTCAGAAGAAGGCTCCCACGGTTCAGAACCTCTTCATCCAGAAGAACGGATTCGTCACAA
GGAACTGCACTTGACCATGAGCAATTTTCTGGAATTGAATCTGAAGCACTTTGTCCGCTCCGCCATGTTTGAAATTGACG
GACATAAATGGTATACCAAGTTACATCACTAATTTCGTGGTTTGTCTTAGCATTAAACCAATCAAATTACTGACACATTC
CAGTGTGTTAAACCTATCAAATTACTGACATATGCTTTCTGGGAACTCAATTATATTTTGTCACCACTGGACATGCTTGT
CAATATATTCACCTTTTCTGGTAAACCTGGAGTGTTTTTCCCCTCATG--------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
---------------------------------------TGTAGAACTTGATGGATATTTAACCTGTTTAATGTCAGGTA
CCTTGGCATCTATCCTCGTG------------------------------------------------------------
----------------------GTGACCCGTACAGCACGAGTTACCTCTCCTTGTACTTATGCATGGATGCTTCGGACAA
GCTCC---------------------------------------------------------------------------
-----------------------------------CTCCTGAATCTGGAAAGCTGGTTGAGTTGAGTTTATCCATCATGG
ACCAAAAGCATGGGCAACATTACACCAGAAAATCTCCAGGTTCGGCTCTTACCTTAGCTGCTACCAATGTGAAGTGACTG
ATATGTCCTATTTGAAGATGATCTTACCTAGTTTTGGTTGCAGCTCTTGTGGTGTTTGCGGGCGAATGTCGCTGGGGATG
GTCCAACTTCATTCCACTCAGCATATTCAGGGATCCATCCAGTGGCTACCTTGTACGGTCGTGCTGCATTGTCAAGGCAG
AGATAACTATCGTTGGTTCATCCAGTGGTGGCGAGGTCTTAGCTGATGGCCAGATGAATTGACAATGTCCTTTGCATCTA
GATCCTGCTGTATAGTATCAGGCTATCGCCTATGTGCAATACTTATG---------------------------------
--------------------------------------------------------------------------------
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---------------------------------------------------------------------------TACGA
TAGTATTGTGGTAGCAGTACTAAGAGCTTGCGATGCATTCTCATGGTAGTAATGATGAACATATATAGCACTGGGAATTG
AGGAATTGATAGGTATGTCTAGGGTACTGTGAGGTTTCGACGTACCTCCATATGCGTGGATACTTCAAGTTTACCAGACA
TCCTCATACTTGTATTATTATCTCTGCTTGGTACATGTAGCTCTGCATGTAGGTTTTAGTAGTAGAACATATCCGTCAAC
ACATTTGTACATTCACCAGCATCTATTGTTATGTACCGAGGGAGTATTTTCTATTTTCAGTAGAAAACATGTGATGTTTT
TAAGTAGAAGAACTTCCATAAGCTATGCATGGATGGTGCTAGTAAATCAATACGGCGTTTTATGCTTTTCTTTTCCCTTC
TCGTTTCTCTTTATTTATTTTCCCCTTTCTATATTCTTACATTTTCATATTCTTTTCCATTTTTCTTTTTCTGTTCTCCT
GCATTTTGTTTTCTTAAATATGTTTGTTCTTTTTCCTTTCTGGCTTAATGTGTTTCACGAAGACATAGTACTCCCACTGT
TTCATAATGTAGTGCATATAGATTTTTTGAAAAGTCAATCTTTATAAACTTTGTCCAAGTTCATAAAGAAAACCATTTAT
ATCTGTAATATCGAATATATACAATATGGAAGTATGTCTTGTGATGTACCTATATGTATTTGGTATTCTAGATGTATATG
TTTTTCCTACAAACTTGATCAAAATTTGTAGAGTTTGACTTTTTTTAAATCTATGCGCACTATGTCATGGAATAGAGGGA
GTATGTTGATTCTACCGTATAAAATGTTCAGTTGTTGGTTTATTTTTACCTGTGAATATAATGTGTTACAGTCACATTAC
TCCATTGAATGAAATACAAAACAAAAAAGGTGGCCATCTTTTGCTAGGAA
>chr1A_620
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-----------------------------------------------------------AGTATTTGTTTCTTTTGGGTG
GATAATTTGTTATCCGTGCACAGTTATTTAGGAAGTGGATTAGTCAAAAAATAAA----TTCAACTAAGTCAAGTTTTTT
CCGAATGTTAATGGAGTCAAAT-------TAGCAACCACAAACTCATAAGTGAACTGTCAGAAGCTGAAGCTTGATAGGA
TGCATAAAGTGGAATAGTTGTGTTGTTTCCTACCTCAGTTATGACTTCTTGACCGACATGGTTTTTGCTC-TCAATTCAT
TTACCAGGTTTCTGCGAGTCACTCCATCTCATACAAAATCCTTCGCTGTAGCTCCATATGTTGCTCTTTCTCTTGGCCTG
AGTGTAGGAAGTTTGGACTTGGAGCCAGATTACACTGTAGAGTCAGTGTTCGTGTTAGCAATATATAATCATTCAAATGG
GCTGTATTATGGATCTGAAGGTAGGTGTTGTATATTGG-TTTTCACACACATACATCCATCCTATTACAGCTGAGATATA
AGTCCCTAAATTTTGATTTGCATTGTACATGATAGATAAATTCCATCTAATTATGTGTCTATA---CTCGAAATTAAGCA
GGTATATTTCATAGAACATAGCTGCTTTTATCGTTTTGGCAATTAAGTTTGCAGACTGTAATTGCGATATCTCGTGCTGG
CATCAAGGATGAACCGACGATAGTTATCGAAGGGCCGTTGGCCGATCTTTTATTAGATAGAATGAAAAGAGTACATCCAG
GCTGACCTTCTAGGCGATCTAGAACTGACAGCCAGCCGCTCAAGACAAGAAGAGAAAGGGCCCGGCTGAAGCCATAGGCC
GGCTACAAAAGAAAGGAGCGATGTCGCCTACACAACCAGCCGATCGCCAAACAGCGATATCTTCCTGGATGAGTTCCAGC
ACCCTGTCCATGCTGCTAGCCACCTGCTGAAA------------------------------------------------
--------------------------------------------------------------------------------
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----------------------AATCCTGGCGTTTCTTTCCTTCCAAATTCGCCAGTGGATCAGGATGGTCATCGTGTCG
AAGTTCCGTCGGGCCAGAAAAGTCACCCGCGTCCAGTTCCTGAACCCGGACCACACCTGCTGTGAATAGCGGCAACCTAA
AAATAGATGTGAGCAATCTTCGTGTGTGGAAAGACACAGCGGGCATGTTCCATTTGATGGCCAGCCCCTTCGCTCCAAAT
TGTCAGCCGTCAAACAGCGCTTGTGAATGACTAGCTACATGAAGAACTTGCATCTTGGTGGGGCTTTGGACCTCCAAATC
GGCTTATGGCAGGCAAAACGTATATTCGCAGTGAAGAACATGCCATAAGCACTGCTGACCGAGAAGCATCGATCATCCGT
CCACTTCCATACCAATCTATCTGGGACCTGCACAGCAAGAACAGTACCTTCCACAACGTCCCAGATCTTAAGATATTGAG
CCATGGCCTGGGCTGAAATGCCTCCCGAAATCTTCCTTATCCAGCTCTGATTATCAATAGCATCTCTCACCGAGCCACCC
CTGTCCTTGACAAAAGAGAATAATGCTGGAGCCGTCTCCTGAATGGAACCGACGATAGTT--------------------
-------------------------------ATCTCCAGGTTCGGCTCTTACCTTGGCTGCTACCAGTGTGAAGTGACTG
ATATGTCCTATTTGCAGATGATCTTACCTTGTTGTGGTTGCAGCTCTTGTGGTGTTTGCGGGCGAATGTCGCTG-GGATG
GTCCAACTTCATTCCACTCAGCATATTCAGGGATCCATCCAGCGGCTACCTTGTACGGTCGTGCTGCATTGTCAAGGCGG
AGATAACTCGGTTCA----------------------------------------------------TCCTTTGCATCTA
GATCCTGCTGTATAGTATCAGGCTATCGCCTATGTGCAGTACTTATCTATGGGAGTGTATCTGGTGCACCCGCACTTGTG
ATGCTATTGATGCATCGGATGCCATAGAATATTTTAAAAAATCTAAAAAAAAAATTTCTAGCATGTTAACACAACATCAA
TGTATGATGTCATAAAATTTCATATAAAAAGTTGAAATATTTTTGAAGATATAAAATAACAAATTTGTCATCAGTGTGAT
AATGTGCCAAATCTAAAACCCAAGTTATGTTATGTACTATTCAGTGTTCAATTTATCATTTATGTTTTGGGAGTTATGTT
TTGAATTTTGACTTGAAATTTTGTGACAATCTACATTGATGTTGTGCAAGCGTGCTTTTTTTTTTTGTAATTTTTAGACA
TTTTAAAAGCACAATGTGAGTTTGGTGCACCGGTAGCACCACAAGCTCCGGTGCACCAGATATTTTCCCCTTGTCTATGA
TAGCATTGTGGTAGCAACACTAAGAGCTTGCGATGTATTCTCATGGTAGTAATGATGAACATATA--GCACTGGGAATTG
AGGAATTGATAGATATGTCTAGGGTACTGTGAGCTTTCGACGTACCTCCATATGCATGGATACTTCAAGTTTATCAGACA
TCCTCGTACTAGTATTATTATCTCTGCTTGGTACATGTAGCTAGCTGCATGTA---------------------------
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>SNPs
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS---S-----------------
------------------S------------SSSS--------------------SSSS--------------S-----S
----S-----------------SSSSSSS-----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--------SSS---S----------
------------S-------S---S--------------S-------------S-----------S------SSS---SS
S----SSSS-SSSS-S-SSS-SSSS-SSSSSSSSSS--------------------------------------------
--------------------------------------------------------------------------------
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-------------S------S--S--S-SS-SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSS--S-----S--S-S-----SSS--SS--------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
-----------------------------------------S--------SSSSS-SS-SSSS--S-SS-SSSS--SS-S
SSS-SSSSS-SSS-SSSSS-------------------------------------------------------------
-----------------------S----S-S------S--SSSSSSS--S-SSSS--S-SSSSSSSSS-SSSSSSSSS-S
S-SSS---------------------------------------------------------------------------
--------------------------------------------SSSSSSSS-SSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS------------------------S----------S-------------
--------------S--------------S---S----------------------------------------S-----
------------------------------------------S-----------------------------------S-
--------SSSS-SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS-------------
--------------------------------------S-------S---------------------------------
--------------------------------------------------------------------------------
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-----------------------------------------------------------------------------S--
---S------------SS-----------------S-----------------------------SS-------------
------------S--------------------S---------------------S-----------------S------
-----S----S-------------------------------SSSSSSS-SSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
>forward_196
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----------------GCAGGATCAGACTCTCGCTC--------------------------------------------
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>reverse_1800
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---------------------------------------TCTGAAGCACTTTGTCCGCT---------------------
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>forward_242
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--------------------------------------------------------------TTGGCGGACTTCTTCACG
AA------------------------------------------------------------------------------
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>reverse_2636
--------------------------------------------------------------------------------
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---------------------------------------------------------------------------CATGG
ACCAAAAGCATGGGC-----------------------------------------------------------------
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--------------------------------------------------
>forward_1819
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---------------------------------------TCTGAAGCACTTTGTCCGCT---------------------
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>reverse_3781
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--------------------AGCTATGCATGGATGGTGCT----------------------------------------
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--------------------------------------------------
