>input_sequence_51525
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------------------------------------------------------ATGGCGCATATAGAAGCTGCTGTCAG
CAGGAAGCAACGTCACCTGCGGAGCGATTTGTTGCCTAATTTGGAGTGGGGCGGCGGCCATGGGGTTAACTGGGCGACTC
TGATATGGTGTGAAGCGAGGGACGAGATGGCACACCTGGTTCAGAGGGACAGGAGTGACCATGACTGCTACTATGGCGCA
TACCTGCAAAGGCTCATTTGGTGGCAGAGGCCAGACCTCTTCCAGTTGCCGCTGGAGCCCGGCGCATCGCGCGCCCAACA
GCAACAGGCAATTCGCACCAACCAATCAGCTTCCGATGAGATCCAAACGCTCCGCTCGGAACTGCTGCTCAAGATACATC
AGGTTGAAGTGAGATCCAAGCAGATCGATTTGGCATTAGAGAAGATCGACGCCGCCTCCAAGGCCATCGATGCGACGTCC
AAGAAATTTGATGCGATATCCAAGCAGCTGGATGCGAGATCAAAGCAGCTGGATGCAAGGTCGGAGCAGCTTGGTGTGAT
ACCTGAACCAAACATTGAGCAAGAAGGGGACGCTCACGCGCTCAAGCAGGTGCTGGCTGCCAAGGAGAAAAAAAGAAACG
ATGACTTGCAAGACGCTTGGAATGCTCGGAAAGTGCTGATGTTGGTAAGTGAGAAACCAGTAC-----------------
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-------ACTTCTTTTTTCACAAGGAAAAATCAAATAAATGAAAAGTGGTTTCTGGCGTGTATGCATTTTGATACAATTG
CATCACATTTCGTTATATTTATGACCAAGTTGGTCAATCTTCTTTGCAGGCCTTGCCCTCGGATAAGTCTACAAATGCGC
GTGCACATATAGGTGTCAGATGGATGGGTGAGCTTGACCCAAGAGCGTTTGCAAATGCTTGCA---AAAATGCAGCACAA
CAGGATGCACAAGTTAATTATGATACTCTTTGCTCCATGTGGCAAGATGAAATTGCGAACCCAAATTGGCGCCCGTATAG
GGTATTCACTGTTGATGGTAAAGAGACGGTATGTAGGCTGTAGAATATCTCAGCTACCATTCCTAGTTTCCTAGCTTTGG
TAGTTTCTATTTTGTAACCTTGAGTCATCTGTAATACAAAATATATTCTGATCAATTCTGCACATTACATCTATCATTCA
ATTCCATCTGGTTTTGCAAACAGTTTCTTTCTTTTTATCTACTCGCAAATATTTCCATGATTCATCTGATAGTGCATACT
TACTTTGGCATAGAGAATTCTCTCCAAGGATGACACCAAGCTTCAGAAGTTAAAAGAAGAGCATGGTCAAGAAATCTACG
CCTTGGTAACAAATGCACTGCTTGAGATCAACGAGTACGACCCCTGCTGCCGCGTAGGTGTACCAGAGCTGTGGAACAAG
AAGGATGGTCGAAGAGCAACACTGGAAGAAACCATCCAGTTTGTCCTTGAACAGAAGCAGTCAAACAAGAGGAAGCGCTG
A-------------------------------------------------------------------------------
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>chr3D_1_TraesCS3D01G455300
GACGAGATGGAAAGCCGTGGCCATGGAGTCGATTTGCTGGGACGGGGGCACGACGGTGATGGCGGAGCTGCAACGACGGC
TGGTGGTGGAGATGCGACGGGGTGCCGCGGTGCTGCAACCACGCAGCGGTCGGGGGAGCTGCAATGGCGACCTCAGACAT
GACGACCACCTCGGGGACGACGACGGCAACCTCGCGCGCGACGACGGTGAGCGGCGACAGCGAGGCGGACGGTTGCGACA
GCGCGGCCGGCGGTGCTTCGTGGTCGCGCATCCATGACGGCCCCGACGGGCTCGCTTCTCTCTGTGCGTGCTGAAGGCAG
GGATAATGTAAGAAAAAGGTAGAAGAGGAGCTGCGATCTGACGGTCTCGCGCGGCCAGATCGGGCAGCTGGGGATAGACC
GGCCGAAACTTTCGGCCAGCGCACCGTGCGCCCAGTGCTGGCCACTTTGAAATGGGTGAACAATTACCCAATCGATAACA
ATCCCTAAACCCCCGCCTCTCGCCTTCTCCCCTTCCCCTCGACTCACCTTCTTCCTCGCAAGCTCTGCTCTACCAATGGC
CCCGAGCCGGAGACCCAAACCTCCTCCCAACGCCCACCCTGAACCGCCAACCGGAGTCCCGAAATCGATCCACTCCGCTG
GGCTCATGCAGGCGGCGCAGCGCATCCACCGAGTCCGGGCCAACCTACGGCTCCACGGCCCGCCCG----------CGCC
GCCCACGAGGCCGGCCTCCGCGAGCTGGGCCTCCTCGACTTCGTCCGCCTCGACCTCCCCTCCTCCGGCG-CCCGCGCCC
CGACCTCGTCGCCGAGCTCATCGCCAACCACAGATCCGTCAACTTCGATCTCGAGTCGAGCTCCGTCCGCGGCGCCAGGA
TCGATCTCTCCATCGGCGCGTTCGCGGAGGCGCTCCGCCTCCCATGGCCGCCTACTGAATCCCCCCCGGCCGGCGGCG--
-TGGGCCTCGCCGTCGAGTCCGCCGCGGCGGTGGCGTTCGCGAAGGTGTACGTCATGGCGCATATAGAAGCTGCTGTCAG
CAGGAAGCAACGTCACCTGCGGAGCGATTTGTTGCCTAATTTGGAGTGGGGCGGCGGCCATGGGGTTAACTGGGCGACTC
TGATATGGTGTGAAGCGAGGGACGAGATGGCACACCTGGTTCAGAGGGACAGGAGTGACCATGACTGCTACTATGGCGCA
TACCTGCAAAGGCTCATTTGGTGGCAGAGGCCAGACCTCTTCCAGTTGCCGCTGGAGCCCGGCGCATCGCGCGCCCAACA
GCAACAGGCAATTCGCACCAACCAATCAGCTTCCGATGAGATCCAAACGCTCCGCTCGGAACTGCTGCTCAAGATACATC
AGGTTGAAGTGAGATCCAAGCAGATCGATTTGGCATTAGAGAAGATCGACGCCGCCTCCAAGGCCATCGATGCGACGTCC
AAGAAATTTGATGCGATATCCAAGCAGCTGGATGCGAGATCAAAGCAGCTGGATGCAAGGTCGGAGCAGCTTGGTGTGAT
ACCTGAACCAAACATTGAGCAAGAAGGGGACGCTCACGCGCTCAAGCAGGTGCTGGCTGCCAAGGAGAAAAAAAGAAACG
ATGACTTGCAAGACGCTTGGAATGCTCGGAAAGTGCTGATGTTGGTAAGTGAGAAACCAGTAC-----------------
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-------ACTTCTTTTTTCACAAGGAAAAATCAAATAAATGAAAAGTGGTTTCTGGCGTGTATGCATTTTGATACAATTG
CATCACATTTCGTTATATTTATGACCAAGTTGGTCAATCTTCTTTGCAGGCCTTGCCCTCGGATAAGTCTACAAATGCGC
GTGCACATATAGGTGTCAGATGGATGGGTGAGCTTGACCCAAGAGCGTTTGCAAATGCTTGCA---AAAATGCAGCACAA
CAGGATGCACAAGTTAATTATGATACTCTTTGCTCCATGTGGCAAGATGAAATTGCGAACCCAAATTGGCGCCCGTATAG
GGTATTCACTGTTGATGGTAAAGAGACGGTATGTAGGCTGTAGAATATCTCAGCTACCATTCCTAGTTTCCTAGCTTTGG
TAGTTTCTATTTTGTAACCTTGAGTCATCTGTAATACAAAATATATTCTGATCAATTCTGCACATTACATCTATCATTCA
ATTCCATCTGGTTTTGCAAACAGTTTCTTTCTTTTTATCTACTCGCAAATATTTCCATGATTCATCTGATAGTGCATACT
TACTTTGGCATAGAGAATTCTCTCCAAGGATGACACCAAGCTTCAGAAGTTAAAAGAAGAGCATGGTCAAGAAATCTACG
CCTTGGTAACAAATGCACTGCTTGAGATCAACGAGTACGACCCCTGCTGCCGCGTAGGTGTACCAGAGCTGTGGAACAAG
AAGGATGGTCGAAGAGCAACACTGGAAGAAACCATCCAGTTTGTCCTTGAACAGAAGCAGTCAAACAAGAGGAAGCGCTG
AGCCCACTTACGATTTATCTGTGATCTAGGGTGCTGCTGCTTTTGGTTGCCATAAAACTATTCGCACCTTGAACTTTAGA
CATAGTGTAATCATAGTGCTAGTGGACTGTTTCAAGGTATCAGCGGTTTACTGTTTCTTAGCCTTGACCCCC-TTTTGTC
GGCTAAGTCGATCGAGCTTAGCTGGATTTTCCTATTGTAGCGTTCG--------CATGGATGCTAGTACTAATCTAAAAT
GTTGATTTGCTCCTCATCTTTTGTGAATATGGTGTGTGCCCTCAGGACCTCCTGTAGGTATGCTTCTGTCCTGTGTGTGT
GCTTTTTTCTTGGTAAGAAAGTTCCTCTGTCACTGAGAGAGAGATACAACTGCCTCATGGACCTGAGAATTGATCATGGA
TAAGCA------GCAGGACATAGGT--AAAATGAAGGTCCTGTGGCAA-----------GAATTTTTAGATGATCTGCAA
GAAATAATGCTGCTTAATTTAGCACCGCTAATAGGTGTAAGCTTTCCACGTGCTCGCTTATTGTCAAAGCAATGGAGGCT
GATTGCAGGTATCT-GTTTTGTGTACATATGCTCGTTTTATTTACTTACTCGGCTGGTTGGG-TGTGTTACTTCCAGCAA
GTGATTTCATTGCTTTGATGTAACAGGGAAAG------------------------------------------------
-----------------------------------------------------------------------------TAA
ACTTCCGTAGCTGCCCTTCTGCTTGCTATATATCAACTCTTATTTTT--TACTTGCAAAGGTTTGAGTTGGTGGCATCAC
CTGTTCACCACCTTTTC---GTTCTCGCAATGAAATGTACGCATGAGACAACGCAATGCATGCCCTCCAGCTGTATCAAA
TAAAAATAATTTTATTACCGCGGATTGGCTTCAAATAGTTGGTATTTTGGGCTGTGTTTATGTGTTCTGGAGAAGTAGGA
TTCGTAATTCAAATGTTTTACGGTGTGCCTATATGCTTAATCATGGTTTGTTGTTGGAACTGCGATAAGGTGTCACTGCT
TTGTGCATAGTTGTAATCTTGAATATTCCATTCCGGCGTTT
>chr3A_523
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------------------------------------------CTCACCTTCTTCCTCGCGAGCTCC-----ACCAATGGC
CCCGAGCCGGAGACCCAAACCTGCTATCAACGCCCATCCTGAGGGGCCAGCCGGAGTCCCGAAATCGACCCACTCCGCTG
GCCTCATGCAGGCGGCGCAGCGCATCCACCGAGTCCGGGCCAACCTCCGGCTCCACGGCCCGCCCGCGCCGCCCGCCGCC
GCCCACGAGGCCGGCCTCCGCGAGCTCAGCCTCCTCGACTTCGTCCGCCTCGACCTCCCCTCCTCCGGCGCCCCGCGCCC
CGACCTCGTCGCCGAGCTCATAGCCAACCACAGATCCGTGAAATTCGATCTCGAGTCGAGCTCCGTCCGCGGCGCCAGGA
TCGATCTCTCCATCGGCGCGTTCGCGGAGGCGCTCCGCCTCCCATGGCCGCCCACCGAGCGTCCCCCGGCAGGCGTCGGC
GTGGGCCTCGCCGTCGAGTCCGCCGCGGCGGTGGCGTTCGCCAAGGTGTACGTCATGTCGCATATAGAAGCTGCTGTCAA
CAGGAAGGACCGTCACCCGCGGAGCCACCTGTTGCCTAACTTGGAGTGGGGCGGCGGCCATGGGATTAACTGGGCGACTC
TGATGTGGTGCGAAGCGAGGGACGAGATGGCACACCTGGTTCAGAGGGACAGGAGTGACCATGACTGCTACTATGGCGCA
TACCTGCAAAGGATCATTTGGTGGCAGAGGCCGGACCTCTTCCAGTTGCCGCCGGAGCCCGGTGCATCACACGCCCAACA
GGCGCTTGGCAGCG------ACCAATCAGCTTCCGATGAGATCCAAACTCTCCGCTCGGAACTGCTGCTCAAGATACATC
AGGTTGAGGTGAGATCCAGGCAGATCGATTTGGCATTAGAGAAGATCGACGCCGCCTCCAAAGCCATCGATGCGACATCC
AAGAAATTTGATGAGATATCCAAGCAGCTGGATGGGAGATCAAAGCAGTTGGATGCGAGGTCGGAGCAGCTCGGTGTGAT
ACCTGAACCAAACATTGAGCACGAAGGGGACGCTCACGCGCTCAAGCAGGCGCTGGCTGCCAAGGAGAAAAAAAGAAATG
ATGACTTGCAAGATGCCTGGAATGCTCGGAAAGTGCTGATGTTGGTAAGTGAGAAACCAGTACTCCCTCCGTTCTTTTTT
TATAAGACGTTTTGGACAGCTGACATAGAACTGTTTTGGGCATTGTCTGAATTGTCTAAACGTCTTATAAAAGTGAACAG
AGGGAGTACTTCTTTTTTCACAAGGAAAAATCAAATAAATGAAAAGTGGTTTCTGGCGTGTATGCATTTTGATACATTTG
CATCACATTTCGTTATATTTATGACCAAGTTGGTCAATCTTCTTTGCAGGCCTTGCCCTCGGATAAGTCTACAAATGCTC
ATGCACATATAGGTGTCAGATGGATGGGTGAGCTTGACCCAAGAGCGTTTGCAAATGCTTGCAGCAAAAATGCAGCACAA
CAGGATGCACAAGTTAATTATGATACTCTTTGCTCCAAGTGGCAAGATGAAATTGCAAACCCAAATTGGCGCCCGTATAG
GGTATTCACCGTTGATGGTAAAGAGACGGTATGTAGGCTGTAGATTATCTCAGCTACCATTCCTAGTTTTCTAGCTTTGG
TAGTTTCTAGTTTGTAACCTTGAGTCATCTGTAACACAAGTG-TATTCTGATCAATTCCGCCCATTACATCGAT----CA
ATTCCATCTGGTTTTGCAAACAGTTTCTTTCTTTTTATGCACTCGCAAATATTTCCATGATTCATCTGATAGTGCATACT
TACTTTGGCATAGAGAATTCTCTCCAAGGATGACACCAAGCTTCAGAAGTTAAAAGAGGAGCATGGTGAAGAAGTCTACG
CCTTGGTAACAAATGCACTGCTTGAGATCAACGAGTACGACCCCCGCAGCCGCGTAGGTGTACCAGAGCTGTGGAACAAG
AAGGACGGTCGGAGAGCAACACTGGAAGAAACCATCCAGTTTGTCCTTGAACAGAAGCAGTCAAACAAGAGGAAGCGCTG
AGGCCACTTATGATTTATCTATGATCTAGGGTGCTGCTGCTTTTGGTTGCCATGAGACTATTCACACCTTGAACTTTAGA
CATAGTGTAATCGTAGTGCTAGTGGACTGTTTTGAGGTATCAATGGTTTACTGTTTCTTAGCCTTGACCCCCCTTTTGTC
GGCTAAGTCGATCGAGCTTAGCTAGATTTTCTTGTTTTAGTGTTGGCATGAAGCCATGAATGCTAGTACTAATCTAAAAT
GTTGATTTGCTCCATATCTTTTGTGAATATGATGTGTGCCCTTAGGACCTTCTGCAGTTATGCTCCTGTCCTGTGTGTGC
ATTTTTTTCTTGGCAAG-AAGTTCCTCTGTTACTAAGAGAGAGATATGACTGCCTCATGGACCTGCAAATTGATCATGCA
TAAGCAACAGCAGCAGGACATAAGTAAAAAATGAAGGTCCTGTGGCAACAGTTCTTGCTGAATTTTTAGATGATCCGCAA
GAAATTCTGCTGCTTAATTTAGGAGTGC---TAAGTGTAAGCTTTCCACGTGCTCACTTGTTGTCAAAGCAATGGAGGCT
GATTGCAGGTATCTTGTTTTGTGTACATATGCTCATTTTATTTATGTACTCAGCTGGCTGCGATGTGCTACTTTCAGCAA
GTGATTTCATTGCTTTGATGCAATTGGGAAAGTATATGCTACTCCTTCCGTCCGAAAAAACTTGCTGGAGAAATGGATAA
AAATGAATGTATCTAAAATTAAAATATGAATAGATACATCCATTGCTCCGACAAGTATTTCCGGACGGAGCGAGTACTAT
ACTTCCGTAGCTGCTGC-CTGCTGGCTATATATATTTTGTTATTTATTATACTTACAAAGATTTGAGTTGGTGGC-TCAC
CGGTTCACTACCTCTTATTTGTTCTCGCAATGGAATGTATGCAGGAGACAACGCAATGCATGCTCTTCCGCTGTATCAAA
TAAAAGTAATTTTGTTCCCGTGGATTGGCTTCAAATAGCTGGTATTTTGAGCTGTGTTTATGTGTTCTGGAGAAATAGGA
TTCATAATTCAATTTTTTTAAGGCATGGCTATGTGCTTAATCATGGTTTGTTGTTGGAACTGCGATAAGGTGTCACTGCT
-TGTGGATAGTTGTAACCTTGAATATTCCATTCCGGTGTTT
>SNPs
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS-----------------S-----SSSSSS---------
----------------------S--SS---------S-----SSS----S------------------S-----------
-S--------------------------------------------S---------------------------------
--------------------------SS----------------------------------------------------
---------------------S-----------------S--S-------------------------------------
----------------------------------------------------S--S--SSSS--------S----S----
-----------------------------------------S---------------S---------------------S
-------S-S-------S-------S-SS----------S------------------------S---------------
----S-----S---------------------------------------------------------------------
------------S-------------------S-------------------S---------S-----S-S---------
-SSS-SS-SS-SSSSSSSSS----------------------------S-------------------------------
-------S----------S------------------------------------------S--------------S---
-------------S--------------------S-------------S-------S--------------S--------
---------------------S----------------------------S---------------------------S-
-------------S--S---------------------------------------------------------------
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----------------------------------------------------------------------------S---
------------------------------------------------------------------------------S-
S-------------------------------------------------------------------------------
-------------------------------------S------------------S-----------------------
---------S----------------------------------S------------------------S----------
---------S------------------------S----SSSS---------------S--S---------S--SSSS--
--------------------------------------SS----------------------------------------
---------------------------------------------------------S---------S-----S------
--------------------------------------------S--S--------------------------------
-----S-----S--------------------------------------------------------------------
--S-------S---------S--------------------------------S-S-------S----------------
------------S-------------------SS--------SS------------------------------------
-----------------------S-------S-S--S---S---S-------------S---------------------
-------------SS----------------S----------S-------S---S--S------S--------------S
SS-----------S---S------------S---S-----------SS-----------------SS-----------S-
----------------------S----------------------------------------------------S----
-----SS---------------S-SS--SSS--S---------------------S---S--------------------
----------------------------------S---------SS-----S-----S--S------S-----S------
--------------------S--SS-------------------------------------------------------
-------------------------------------------------------------------------------S
--------------SSSS-----S---------SSSS-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----------S-------------------S----
>forward_356
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----------------AGGTAGAAGAGGAGCTGCGA--------------------------------------------
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>reverse_1282
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-CAACAGGCAATTCGCACCAA-----------------------------------------------------------
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>forward_456
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------------------------------------GCTGGCCACTTTGAAATGGG------------------------
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>reverse_1283
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--AACAGGCAATTCGCACCAAC----------------------------------------------------------
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>forward_546
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----------------------------------------------CCTTCTTCCTCGCAAGCTCT--------------
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>reverse_1614
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-------------CGCTTGGAATGCTCGGAAAG-----------------------------------------------
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>forward_1489
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-----------------------------GGATGCGAGATCAAAGCAGC-------------------------------
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>reverse_3360
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-------------------------------------------------------------------------------A
ACTTCCGTAGCTGCCCTTC-------------------------------------------------------------
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