>input_sequence_56608
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---------------------------------------------------------------------------ATGCA
GGCCCAGGGCATCCTCCGCGTCCCCGGTCACCTGCCGACGGCGCTGCCCCTCCCGCGCCGGCAATGCCGCCGCGTGTCCG
CTGCGGCGGCCGTGGCGGCGGCGGCGCCGTCGGTGCAGCGCGGCGTGACGCACTCGATGCCGCCGGAGAAGGCGGAGGTG
TTCCAGTCGCTGCGGGGCTGGGCGGCGGGGTCGCTGCTGCCGCTGCTCAGGCCCGTGGAGGACATCTGGCAGCCGGCGGA
CTTCCTGCCGGACTCGTCGTCCGAGATGTTCGAGCACGAGGTGCGCGAGCTGCGGGCCCGCGCCGCCGCGCTGCCCGACG
AGTACTTCGTGGTGTTGGTCGGGGACATGGTCACCGAGGAGGCGCTCCCCACGTACCAGACCATGATCAACACCCTGGAC
GGCGTCCGCGACGAGACCGGCGCCAGCGCCTGCCCCTGGGCCGTCTGGACCCGCGCCTGGACCGCCGAGGAGAACCGACA
CGGCGACGTCCTCAACAAGTACATGTACCTCTCCGGCCGCGTCGACATGCGCATGGTCGAGAAGACCGTCCAGTACCTCA
TCGGCTCCGGCATGGTACGCG------GAGCTTCTTGAACGAGTCTGTCGAAAAATCCGTCAATTCCTCCTGTTTAGTTG
TACAATCTCATCGGACATGCTGAACAATTGCAGGACCCGAGGACGGAGAACAACCCGTACCTGGGCTTCGTGTACACGAG
CTTCCAGGAGCGCGCGACGGCCGTCTCCCACGGCAACACCGCGCGGCTCGCCAAGGCGCACGGCGACGACGTGCTGGCGC
GCACCTGCGGCACCATCGCCGCCGACGAGAAGCGCCACGAGACGGCCTACAGCCGCATCGTGGAGCAGCTGCTGCGGCTC
GACCCGGAGGGCGCCATGCTCGCCATCGCCGACATGATGCGCAAGCGGATCACCATGCCCGCGCACCTCATGCACGACGG
CAGCGACATGGACCTGTTCGAGCATTTCGCGTCTGTGGCCCAGCGCCTCGGCGTGTACACCGCGCAGGACTACACCGACA
TCGTCGAGTTCCTCGTCAAGCGGTGGAAGCTGGAGGCGCTGGAGGGCGGGCTCTCCAGCGAAGGGCGGCGGGCCCGGGAC
TTCGTCTGCGGGCTCGCGCCGAGGATGCGGCGCGCGGCGGAGAGGGCGGCCGACAGGGCCAAGAAGGACGAGCCCAGGAA
GGTCAAGTTCAGCTGGATCTTTGACAGGGAAGTGGTTGTCTGA-------------------------------------
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>chr3D_1_TraesCS3D01G403800
CTAAGAGCATCTCTTGACTTGAGTTCAACGCGTCTCATTGTTATAGAAAATAAAGAAAACTCCACGAGAATTGTGAAACT
CTGCACATTTTCTAAATATTACATGTAGCTGATCATCGATGGACCCCTTCCTACCGTGAGGGCCTATCAAGTTTGGGGAT
CAAGGGCCAGTTCTTTTGGGCAATTCTCCCAGAATTGACCCCCTCCCAGCTTCTTCCATAATTGCCACTCCATTTCTTTT
TTACAATTCCTATCTAGTTATAAAAAAGGGTTTAACTAGATAGGAATTGTAAAAAAGAAATGGAGTGACAATTATGGAAG
AAGCTGGGGAGGGGGTTAATTCTGGTTAATTCTGGGAGAATTGCCCAAAAAACTAGCCCCAAATCTCCTTCACAACGACA
TTGAACGATGGTACGGAGATTCTCTCCATCCAACCTACTGTAGTAACTTTTTTCCAACCTAAATGTCCAAAATCAGACAG
CGTGCGACCACTCGCATCAAAATCGTGAACATTGTATCATCGCTCCGCTCCAAATTTCCGAGGCGGTTTTGACTCGTTCA
GATGGGTCTATCTATCGCACAGTTTGAGGACATTTGTAGCTTTGCCGAAGACATTTTGCTGCTGTGAGGACGTGACCAGC
CCTCGTGGCGGTCGCTACTGTTGGTGGTGTGA-CCAACCAACCAGCACGTGCTGTTCGAGTGCCTCGGATAGTCGGATCA
GATGGACAACTGGATCTGTACTACAGT----------------------------------AGCTCAACCTGGGGGCACA
CCACGGTCTACAGCTAGCCGCTCCCCGAAACACCCACAGAATCAGCCAGCCCGCTCCCCGCCCAAAACCACTGCACGCAC
CCACTGGTTTTCCGCCTCCGGTACTCCGGCGGTACCGCCCCGACGCCGCAGTTTATATACGGAGCCCCGACACCGCAGCC
GTCGCAGTCCGACGACGCAAGTACACCACCCCACCGCGCCGCCACCACTCACCCATCGATCGGGAGCTAGCCACCATGCA
GGCCCAGGGCATCCTCCGCGTCCCCGGTCACCTGCCGACGGCGCTGCCCCTCCCGCGCCGGCAATGCCGCCGCGTGTCCG
CTGCGGCGGCCGTGGCGGCGGCGGCGCCGTCGGTGCAGCGCGGCGTGACGCACTCGATGCCGCCGGAGAAGGCGGAGGTG
TTCCAGTCGCTGCGGGGCTGGGCGGCGGGGTCGCTGCTGCCGCTGCTCAGGCCCGTGGAGGACATCTGGCAGCCGGCGGA
CTTCCTGCCGGACTCGTCGTCCGAGATGTTCGAGCACGAGGTGCGCGAGCTGCGGGCCCGCGCCGCCGCGCTGCCCGACG
AGTACTTCGTGGTGTTGGTCGGGGACATGGTCACCGAGGAGGCGCTCCCCACGTACCAGACCATGATCAACACCCTGGAC
GGCGTCCGCGACGAGACCGGCGCCAGCGCCTGCCCCTGGGCCGTCTGGACCCGCGCCTGGACCGCCGAGGAGAACCGACA
CGGCGACGTCCTCAACAAGTACATGTACCTCTCCGGCCGCGTCGACATGCGCATGGTCGAGAAGACCGTCCAGTACCTCA
TCGGCTCCGGCATGGTACGCG------GAGCTTCTTGAACGAGTCTGTCGAAAAATCCGTCAATTCCTCCTGTTTAGTTG
TACAATCTCATCGGACATGCTGAACAATTGCAGGACCCGAGGACGGAGAACAACCCGTACCTGGGCTTCGTGTACACGAG
CTTCCAGGAGCGCGCGACGGCCGTCTCCCACGGCAACACCGCGCGGCTCGCCAAGGCGCACGGCGACGACGTGCTGGCGC
GCACCTGCGGCACCATCGCCGCCGACGAGAAGCGCCACGAGACGGCCTACAGCCGCATCGTGGAGCAGCTGCTGCGGCTC
GACCCGGAGGGCGCCATGCTCGCCATCGCCGACATGATGCGCAAGCGGATCACCATGCCCGCGCACCTCATGCACGACGG
CAGCGACATGGACCTGTTCGAGCATTTCGCGTCTGTGGCCCAGCGCCTCGGCGTGTACACCGCGCAGGACTACACCGACA
TCGTCGAGTTCCTCGTCAAGCGGTGGAAGCTGGAGGCGCTGGAGGGCGGGCTCTCCAGCGAAGGGCGGCGGGCCCGGGAC
TTCGTCTGCGGGCTCGCGCCGAGGATGCGGCGCGCGGCGGAGAGGGCGGCCGACAGGGCCAAGAAGGACGAGCCCAGGAA
GGTCAAGTTCAGCTGGATCTTTGACAGGGAAGTGGTTGTCTGAGATAGCTATAGTGTTGGCCTGACTTCTGAGACTACTG
AGATAGTGACATGATCCTGTAA-TGTCGTTCTGTGTTCTTGTGTTC-CTCTCTTTGCAAAGTTGGTTTATAGTGCCTTTT
GAATTTGGAAACATGGGGGAAATGTTATATTCTGGAACCTTTACAAAGACGGACAAATGGTTTAGTTTTGAACAACTGAC
TCCCATGAACTGGCATGCATAACTGATAACTGATGACAGCATATAAAATGGACAAGCACTGTGTAATTTTTCAAGGGAAG
TGCAATCCCTGGTTGCAAAAAAGAAAAGAAAAACTAAAGCCAACATACATGTATTTATCGAAGTTTGAAATGCAAGAGAT
TTGCAACTGGTGTATGCTCATATGCCTGAGACGCATTCCATTTTTGACTTGAGAAATATATTTGAGTATACAGATATACA
GTGGTACCATCTACATTTCAATGAAATTTTTGGCCGGCTGAACTTGCCAAAATCAAGGTTTTGTGCCAGAACTTTCTGAA
TCAAATTCAACAAGTCCAACCCAGAAATTAGTTTTCGAACAAGAACCCACAAGTTATTGTTCAGCAAAACTAAAACCTAC
TATCACTAAATTTTCTAGTAGATGCAGCATAACAGGAGATTATCTACCAAACCACCAGCGACGAAATGAAATGAACTTAC
AGTTTGATATAGCCGCAACAATGTACTGCTATCTGCAACACACTTTGTGTTCAGGAATGTCAAGCTCAACTGAACTGCAC
CCGGGAGTCTTCTCAACCCCATGGTTCGCCATCTTTCTCCTGACGCGCTCTGCCTGCTCCCACCTCTCGGACGCGGCCAA
GATATTTGACAGCATGATGTACTCTGCATCATTAGTTGATGCACCATCAGAGCGCAATTGGTTGATCTCATCTGACACCC
GCTCCGACATCTCCGCATTGTCATGCACTCTGCAAGCTCCGAGAAGAGCGCCCCAGATGACCTCGTTAGGCTCCATCGCC
ATGCT
>chr3A_443
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------------------------------------------GTAACCTTTTTCCAACCTAAATGTCTAAAATCAGACAA
CATGCGATTACTCGCATCAAAATCGTGAACATTCTATCATCGCTCCGCTCCAAATTTCCGAGGTGGTTTTGACTCGTGCA
GGTGGGTCT----ATCGCACAGTTTCAGCACATCTGTGGCTTTGCCGAAGACATTT---TGCCGCGAGGACGTGACCAG-
CCTCGTGGCGGCCGCAACTGTTGGCGTGGCCAGCCAACCAACCAACACGTGCTGTTCGAGTGCCTCGGT--------TCA
GATGGACAACTGCGTCTGTACACTGTACTCCTCAACCTGGGGGCGGACCCGTCCAAAAAAAAGCTCAACCCGGGGGCGGA
CCACGGTCTGTAGCA----GCTCCCCGAAACACCCACAGAATCAGCCAGCCCGCTCCCGGCACAAAACCACTGCACGCAC
CCACTGGTTTTCCGCCTCCGGCAGTCCGGCGGTACCGCCCCGACGCCGCAGTTTATATACGGAGCCCCGACACCGCAGCC
GTGGCAGTCCGACGACGCAACAACACCACCCCACCGCACCGCCACTACTCACCCATCGGTCGGGAGCTAGCCACAATGCA
GGCCCAGGGCCTCCTCCGCGTCCCCGGCCACCCGGCGGCGGCGCGGCCCCTCCCGCGCCGGCAATGCCGCGTGT------
------CGGCCGTGGCGGCGGCGGCGCCGTCGGTGCAGCGCGGCGTGACGCACTCGATGCCGCCGGAGAAGGCGGAGGTG
TTCCAGTCGCTGCGGGGCTGGGCGGCGGGGTCGCTGCTGCCGCTGCTCCGGCCCGTGGAGGACATCTGGCAGCCGGCGGA
CTTCCTGCCGGACTCGTCGTCCGAGATGTTCGAGCACGAGGTGCGCGAGCTGCGGGCCCGCGCCGCGGCGCTGCCCGACG
ACTACTTCGTGGTGCTGGTGGGGGACATGGTCACCGAGGAGGCGCTCCCCACGTACCAGACCATGATCAACACCCTCGAC
GGCGTCCGCGACGAGACCGGCGCCAGCGCCTGCCCCTGGGCCGTCTGGACCCGCGCCTGGACCGCCGAGGAGAACCGCCA
CGGCGACGTCCTCAACAAGTACATGTACCTCTCCGGCCGCGTCGACATGCGCATGGTCGAGAAGACCGTCCAGTACCTCA
TCGGCTCCGGCATGGTACGCAGAGTCAGAGCTTCTTGAACGAATCTGTTGAACGAGGA---------------------G
TACAATCTCATCTGACATGCTGAGCAATTGCAGGACCCGAGGACGGAGAACAACCCGTACCTGGGCTTTGTGTACACGAG
CTTCCAGGAGCGCGCCACGGCCGTCTCCCACGGCAACACCGCGCGGCTCGCCAGGGCGCACGGCGACGACGTGCTGGCGC
GCACTTGCGGCACCATCGCCGCCGACGAGAAGCGCCACGAGACGGCCTACAGCCGCATCGTGGAGCAGCTGCTGCAGCTC
GACTCGGACGGCGCCATGCTCGCCATCGCGGACATGATGCGCAAGCGGATCACCATGCCCGCGCACCTCATGCACGACGG
CAGCGACATGAGCCTGTTCGAGCATTTCGCGTCCGTGGCCCAGCGCCTCGGCGTGTACACCGCGCAGGACTACACCGACA
TCGTCGAGTTCCTCGTCAAGCGGTGGAAGCTGGAGGCGCTGGAGGGCGGGCTCTCCGGCGAAGGCCGGAGGGCCCGGGAC
TTCGTCTGCGGGCTCGCGCCGAGGATGCGGCGCGCGGCGGAGAGGGCGGCCGACAGGGCCAAGAAAGACGAGCCCAGGAA
GGTCAGGTTCAGCTGGATCTTTGATAGGGAAGTGGTTGTCT-----------AGTGTTGGTCTGACTTCTGAGACT---G
AGATAGTGAGATGATCCTGTCACTGTCCTTCTGTGTTCTTTTGTTTTCTCTCTTTGCAAAGTTGTTCTATAGTTTCTTTT
GAATTTGGAAACAATGTACTACTATCAGTTTGAT----------------------------------------------
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----------------------------------------------------------------AATGAAATGAACTTAC
AGTTTGATATCGCTGCAACAATGTACTACTATCTGCAACGCACTTTGTGTTCAGGAATGTCAAGCTCAACTGAACTGCAC
CCGGGAGTCTTCTCAACCCCATGGTTCGCCATCTTTCTCCTGACGCGCTCTGCCTGCTCCCACCTCTCGGACGCGGCCAA
GATATTTGACAGCATGATGTACTCCGCGTCATTGGTTGATGCACCATCAGAGCGCAACTGGTTGATCTCATCTGACACCC
GTTCAGACATCTCTGCATTGTCATGCACCCTGCAAGCTCCGAGAAGAGCGCCCCAGATGACCTCGTTAGGCTCCATCGCC
ATGCT
>SNPs
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS-----S-------------------S-----------S
-S-----SS------------------------S-----------------------------S-------------S--
-S-------SSSS------------S--S----S---S------------------SSS---S-S--------------S
-----------S---S--------S-SS-SS-------------S-----------------------SSSSSSSSS---
------------SS-------SSSSSS-------------------------------------------S------SS-
---------SS---SSSSS---------------------------------------S--S------------------
---------------------S-S--------------------------------------------------------
--S-----------------SS---------------S-------S------------S---------------S-----
----------S----------------S----S-S--S------S-------------------------SSSSSSSSSS
SSSSSS--------------------------------------------------------------------------
------------------------------------------------S-------------------------------
------------------------------------------------------------------S-------------
-S------------S----S--------------------------------------------------------S---
-----------------------------------------------------------------------------S--
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--------------------S---------------------S-----S---SS-SSSSSSSSSSSSSSSSSSSSSSSS-
------------S----------S--------------------------------------------S-----------
---------------S-------------------------------------S--------------------------
----S----------------------------------------------------------------------S----
---S----S--------------------S--------------------------------------------------
----------SS---------------------S----------------------------------------------
--------------------------------------------------------S-------S---S-----------
-----------------------------------------------------------------S--------------
-----S------------------S----------------SSSSSSSSSSS--------S---------------SSS-
---------S----------S------S------------S----S------------------S-S------SS-----
-------------SS-SSSS-S-S-S-SS--SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS----------------
----------S--S-------------S-----------S----------------------------------------
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------------------------S--S-----S-----------------------S----------------------
-S--S--------S--------------S---------------------------------------------------
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>forward_132
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--------------------------------TCATCGATGGACCCCTTCCT----------------------------
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>reverse_1704
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-----------------------ACAATTGCAGGACCCGAGG--------------------------------------
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>forward_342
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--GCTGGGGAGGGGGTTAATTC----------------------------------------------------------
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>reverse_2265
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------------------------CAGGGAAGTGGTTGTCTGAGA-----------------------------------
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>forward_818
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------------------------------------------------------------------------------CA
CCACGGTCTACAGCTAGC--------------------------------------------------------------
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>reverse_2663
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----------------------TGCCTGAGACGCATTCCATT--------------------------------------
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