>input_sequence_71953
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-------------------ATGGAGGCCTCCATGCTCAAGCCGTCGGTGTTGCTATCTCCGGC-----------------
----------GCGGGGGCGGGGCTGCGTCGTCGCCGGCGCCGGCGGCCGCGGCAGCAAGGTCGGACGGCTGGTTCTTGGT
TGCTTACTGTTCATGGAGAGCGAGCTCCATCCATCGTCTCTCACACGCTGCTTCTTTTTCATTTCTT-TCCAATCAATCA
GAACCTCGAGACACGGCGGCCGGAAGGGA------------------------GCGAGCCGGCCAGAGGAGCCCACGGCC
ATGTCCTACCCCT---------GGCGGCAGCGGCGGTGAGCAGCAGCGCCGCCGCCCTGCCGTGCCACGCCGCGACCTCT
CCGGCGGCGTACGAGCAATCGCTG---------TACAGGGCGGCGGTGGTGCTGGGGGAGCTGGACCCGGCGACGGCGAA
GGTGGTGATCGGGGTGGCGGGGCCGGCGCTGTCGGCGGTGGGGTTCCTGTTCGTGGCGCGGATCGTCATGTCGTGGTACC
CGAGGCTGCCGGTCACCAAGTTCCCCTACGTGGTGGCCTACGCGCCCACGGAGCCCATCCTCGCCGCCACCCGCCGGGTC
ATCCCGCCGCTGGGCGGCGTCGACGTCACGCCGGTGGTCTGGTTCGGCCTCGTCAGCTTCCTCAGCGAGATCCTCGTCGG
GCCCCAGGGCCTCCTCGTCCTCCTCTCCCAGCAAGT---------CTCTCCCTCGTAG----------------------
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>chr3A_1_TraesCS3A01G516500
CGACGGCCTGCGGAATGTAGGCCTTGAGCGTGTCGTAGCTGTAGACCATCTGCTCCCTGGAGGCGGAGGCGCCGACGTTG
CCCCCCGTGGCCTCCACCTCCTGCACGATCTGCATGTGGCTCCGGTGCGCCGTGTCCTTGAACGCCAGCTTCTCCAGCAG
GTGCGTCGCGCCGGTGGACTCGGGCGACTCGTGGATCGAGCCGGACGCCACGAACACCCCCACGCACGCCGTGGGACCCT
GACAAACCACCG--CACGGAGGCGTCAGCGGAGC---------------------------ACCATATGGGCTCATCAGG
AGGGGGAGATGGGGGAGGTGGGTGGTACCGGGACGTCCTCGGAGGCGACGCGGACGCCGTTGGGGAGCGTGGTGATGCGG
GTGGGGAGGCGGGCGAGCTGGTCGGGGAGGCAGGGCGGGAGGTCGAGCCCCGGCAGCGGGTGCAGGAGCGAGGTCGAGCG
CGCGGCGGAGGCTGCGCCGGAGAGCCGCCGCGTCATCGTCGGCAGCGGCGGCGGCACTCTTTGGACCTCGCCGCGCACCA
GCGGCCGGGACGCTTCGCACAGCTGCAATTGACGCAATCCATCCCAGAAACCGTGAGGCAGGCAGCAGGGCGACTAAATA
CAAGCGGGC--GAGC-----------GGC----GGACTCACCTTGCGGAGCAGGCGGGCGGAGGAGCGGAGCCGGAGCAT
CGCGGCGGCGGGGCCGG---GGCTGGTGGAGGGAGCCGCCGGCGAGGAGG-AGGAGGAGAAGCTGCCGTGGAGGAGGGGA
AGGGGG------AAGGAATAGTTCGGCTCGGTCTGCTGGGCCTTAGGTAGGGTTTTTTTGGTGCCACGCTGGGCTCGGAC
CGGGCCGTCGTCCACTGGAGACCCGGTAGAATGAGCCCAAGAAGAGTTCCCGGCCCTTCCTCTTCGTCTAG-TTTTTCCT
TTTTTTTTTCTGCCTTATCCTCGGAGAGCAGGAAAAGGCCACGGCCACGAGCCGCTGTTGCTGCTTCCCTCCTCTCCTCT
GTTTTT--CTCTGCCTCTCATGGAGGCCTCCATGCTCAAGCCGTCGGTGTTGCTATCTCCGGC-----------------
----------GCGGGGGCGGGGCTGCGTCGTCGCCGGCGCCGGCGGCCGCGGCAGCAAGGTCGGACGGCTGGTTCTTGGT
TGCTTACTGTTCATGGAGAGCGAGCTCCATCCATCGTCTCTCACACGCTGCTTCTTTTTCATTTCTT-TCCAATCAATCA
GAACCTCGAGACACGGCGGCCGGAAGGGA------------------------GCGAGCCGGCCAGAGGAGCCCACGGCC
ATGTCCTACCCCT---------GGCGGCAGCGGCGGTGAGCAGCAGCGCCGCCGCCCTGCCGTGCCACGCCGCGACCTCT
CCGGCGGCGTACGAGCAATCGCTG---------TACAGGGCGGCGGTGGTGCTGGGGGAGCTGGACCCGGCGACGGCGAA
GGTGGTGATCGGGGTGGCGGGGCCGGCGCTGTCGGCGGTGGGGTTCCTGTTCGTGGCGCGGATCGTCATGTCGTGGTACC
CGAGGCTGCCGGTCACCAAGTTCCCCTACGTGGTGGCCTACGCGCCCACGGAGCCCATCCTCGCCGCCACCCGCCGGGTC
ATCCCGCCGCTGGGCGGCGTCGACGTCACGCCGGTGGTCTGGTTCGGCCTCGTCAGCTTCCTCAGCGAGATCCTCGTCGG
GCCCCAGGGCCTCCTCGTCCTCCTCTCCCAGCAAGT---------CTCTCCCTCGTAGTATCTTCTTCAGCTTAGCCAAA
AATGCTTCTTATTTTCTGAGTGTAATATACGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNAAAACAGAAGATACAAGTCGAGTCCAGACGTGGAAACCAAGTCCATATTCATACTCAACTATACTATCTG
CCTTTCCGGCAATGAAGCTTTTCGCTGCCAAAGGAGAAAGATGCACAGGTTGCAACAATTTGACAGTACTAAACGATGAA
TTGTGAAACCATTCCGAATTTGCTTTAGGTATGAACTCATCACAAAATCGATGTGGCAACACCCCA-AACAGAAGAGATC
CCTAATCAGAAGGCGACTCGGTCGACGCAGAACTAAAAGCACAGTGCAAGACAAAGGCATCATCAGGAAGATGGA-TTTG
AACTAGTTGCCATTTACAAGGGGGCAC-GCTTCGCGCCCGTGTTTATACAAATAATCGTTACACC-CACCACCATCTGAT
TTCGGCGGCAAATGTCATCTCGCTGTGTATTCTGTATGAGAACAAGATTATATA------CCATACTATCCTCCTTGGAA
AGAAGAAAAAAAACATTTCCCTCCTACAACCCATGTATGTATATTGTTCTGATCTATCTCCAATTGGGTGCTGCATGCCT
CCCTGGCTTCTACAGGCAGCCTCTGTTT
>chr3D_1
CGACGGCCTGCGGAATGTATGCCTTTAGTGTGTCGTAGCTGTAGACCATCTGCTCCCTGGAGGCGGAGGCGCCGACGTTG
CCCCCCGTGGCCTCCACCTCCTGCACGATCTGCATGTGGCTCCGGTGCGCCGTGTCCTTGAACGCCAGCTTCTCGAGCAG
GTGCGTCGCGCCGGCGGACTCGGGCGACTCGTGGATCGAGCCCGACGCCACGAACACCCCCACGCACGCCGTGGGACCCT
GACAAACCACCA--CACGGAGGCGTCAGCGGAGC---------------------------GCCATATGGGCTCATCGGA
AGGAGG----GGGGGAGGTGGGGGGTACCGGGACGTCCTCGGAGGCGACGCGGACGCCGTTGGGGAGCGTGGTGATGCGG
GTGGGGAGGCGGGCGAGCTGGTCGGGGAGGCAGGGCGGGAGGTCGAGCCCCGGCAGCGGGTGCAGGAGCGAGGTCGAGCG
CGCGGCGGAGGCTGCGCCGGAGAGCCCCCGCGTCATCGTCGGCAGC---------ACTCTTTGGGCCTCGCCGCGCCCAA
GCGGCCGGGACGCCTCGCACAGCTGCAATCAACGCAATCCATCCCAGAAACCGTGAGGCAGGCAGCAGGGCGACTAAATA
CAAGCAGAC--GAGAGGCGGGCCGGTGGTCAGTGGGCTCACCTTGCGGAGCAGGCGGGCGGAGGAGCGGAGCCGGAGCAT
CGCGGCGGCGGGGCCGG---TGCTGGTGGAGGGAGCCGCCGGCGAGGAGG-GGGAGGAGGAGCTGCCGTGGAGGAGGGGA
AGGGGG------AAGGAATAGTTCGGCTCCGTCTGCTGGGCCGAAGGTAGGGTTTTTTTGGTGCCCCGCTGGGCTCGGAC
CGGGCCGTCGTCCACTCGAGGCCCGGTAGAATGAGCCCAGGAGAAGCTGCCGGCCATTCTTCGTCTC---------TCTT
TTTTTTTCCCTGCCTTATCCTCCGAGCAAAGGAA--------GGCCACGAGCCTCCGT---TGCTTCCCAACGCTCCTCT
GTTTTC--CTCTGCCTCTCATGGAGGCCTCCATGCTCAAGCCCTCGGTGCTGCTCCCTCCGGCGAGGGGAGGTCCGTCCA
CGACGCGGGGGCGGGGGCGGGGCTGCGTCGTCGCCGGCACCGGCGGCCGCGGCAGCAAGGTCGGACGGTTGGTTCTTGGT
TGCTTACTGTCC-TGGGGAGCGAGCTCCACCCATT-TCTCTCACACGCTGCTTCTTTTACATTTTTT-GCCAATCGAGCA
GAACCTCGAGACACGGCGGGCGGAAGGGA------------------------GCGAGCCGGCCAGAGGAGCCCACGGCC
ATGTCCTACCCCT---------GGCGGCGGCGGCCGTGAGCAGCAGCGCCGCCGCCATGCCGTGCCACGCCGCGACCGCC
CCGGCGGCGCACGGGCCATCGCTGTCCTACTACTACAGGGCGGCGGCGGTGCTGGGGGAGCTGGACCCGGCGACGGCGAA
GGTGGTGATCGGGGTGGCGGGGCCGGCGCTGTCGGCGGTGGGGTTCCTGTTCGTGGCGCGGATCGTCATGTCGTGGTACC
CGAGGCTGCCGGTCACCAAGTTCCCCTACGTGGTGGCCTACGCGCCGACGGAGCCCATCCTCGCCGCCACCCGCCGGGTG
ATCCCGCCGCTGGGCGGCGTCGACGTCACGCCGGTGGTCTGGTTCGGCCTCGTCAGCTTCCTCAGCGAGATCCTCGTCGG
GCCCCAGGGCCTCCTCGTCCTCCTCTCCCAGCAAGT---------CTCCCCCTCTTAGCTTAGTCATCATCTTTTATACT
CTC----------TTGTCAGTGTAATATATGAGCTTATTATGGGTGTGGACGAATTTTCGACATTCGAAATTTTGCCGAA
ATTTATCAAAAACAGTCTTTTCAACTCCCACAACGATCCAGAAAAATTTCTCCCGATGCAAACGAAACAGAGCCTGGAAC
AAAAACTTG-----------------------------------------------------------------------
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-----------------------------------------------------CATATTCACACTCAACT----------
----------AATGAAGCATTCCGCTGCTAT-GGAGAAAGATGCACAGGTTGCAACAATCATCCTTACTTACACGACGAA
CTGCGAAACCATTCCAAATTTGCTTTAGGTATGAACTCGGCACAAAATCGACGCTTCTGACTCCACGAACAGAAGAGATC
TGAAATCAGCAGGCGACTCAGTCGACACAGAACTAAAACCACACTGCAAGACAAAGGCGCCATCAGGAAGACGAATTTTG
AACTAGTTGATATTTACAAAGGGTACGTGCTTCGCACCAGTGTTTATACAAATAATTGCTACATGTCGCCGCCATTCGAT
TCCAGCGGCAAATCTGATCTCACTGTGTATTCTGTATGAGAACAAGATTATATATATATACCATGCTATCCTGTTTGGAA
AGAATAGA------ATTTCCCTTCTACAACCCC----TGTATATTGTTCTGCTCTATCTCCAATAGGCTGCTGC------
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>chrUn_1
CGACGGCCTGCGGAATGTAGGCCTTGAGCGTGTCGTAGCTGTAGACCATCTGCTCCCTGGAGGCGGAGGCGCCGATGTTG
CCCCCCGTGGCCTCCACCTCCTGCACGATCTGCCGGTGGCTCCGGTGCGCCGTGTCCTTGAACGCCAGCTTCTCCAGCAG
GTGCGTGACGCCGGCGGACTCGGGCGACTCGTGGATCGAGCCCGACGCCACGAACACCCCCACGCACGCCGTGGGACCCT
GACAAACCACCCCCCACGGAGGCGTCAGCGGAGAGCGACGACGCAGCAGCAGCAGCAGAGGACGCTATGAACTCATCAGA
AGGAGG----GAAGGGGGC---TGGTACCGGGACGTCCTCGGAGGCGACGCGGACGCCGTTGGGGAGCGTGGTGACGCGG
GTGGGGAGGCGGGGGAGCTGGTCGGGGAGGCAGGGCGGGAGGTCGAGCCCCGGCAGCGGGTGCAGGAGCGAGGTCGAGCG
CGCGGCGGAGGCTGCGCCGGAGAGCCGCCGCGTCATCGTCGGCAGCGGCGGC---ACTCTTGGGACCTCGCCGCGCCCCA
GCGGCCGGGACGCCTCGCACAGCTGCAATTAACGCAATCCATCCCGGCGACCGTGAGGCAGGCAGCAGGGCGACTAAATA
CAAGCAGGCGAGAGAGGCGGGCGAGTGGC----GGGCTCACCTTGCGGAGCAGGCGGGCGGAGGAGCGGAGCCGGAGCAT
CGCGGCGGCGGGGCCGGTGGTGCTGGTGGAGGGAGCCGCCGGCGAGGAGGAGGGGGGAGAAGCTGCCGTGGAGGAGGGGA
AGGGGAAGGGGAAAGGAATAGTTCGGCTCGGTCTGCTGGGCCGCAGGTAGGGTTTTTTTGGTGCCCGA----------AC
CGGGCCGTCGTCCACTGGAGGCCCGGCAGAATGAGCCCAAGAGGAGTTCTCGGCCCTTCCTCTTCGTCTAGTTTTTTCCT
TTTTTTTTTCTGCCTTATCCTCGGAGAGCAGGAAAAGGCCACGGCCACGAGCCGCTGCTGCTGCTTCCCT-CTCTCCTCT
GTTTTTCTCTCTGGCTCTCATGGAGGCCTCCGTGCTCAAGCCGTCGGTGCTGCTCCCTCCGGCGAGGGGAGCGCCCTCCA
CGGCGCGGGGGCGGGAGCGGGGCTGCGTCGTCGCCGGCGCCGG---------CAGCAAGGTCGGACGGTTGGTTCTTGGT
TGCTTACTGTCCATGGAGAACGAGCGCCATCCATC-TCTCTCTCACGCTGCTTCTTTTTCATTTCATGTCCAATCGAGCA
GAGACTCGAGACACGGCGGCCGGAAGGGAGCAGCAGCGACGGCGCGCCCAGGAGCGAGCCGGCCAGAGGATTCCACGGGC
ACGTCCTATCCCTGACGGCAACGGCAGCGGCGGCCATGAGCAGCAGCGCCGCCGCCATGCCGTGCCACGCCGCGACCGCC
CCGGCGGCGCACGGGCCACCGCTCTCCTACTACTACAGGGCGGCGATGGTGGTGGGGGAACTGGACCCGGCGACGGCGAA
GGTGGTGATCGGGGTGGCGGGGCCGGCGCTGTCGGCGGTGGGGTTCCTGTTCGTGGCGCGGATCGTCATGTCGTGGTACC
CGAGGCTGCCGGTCACCAAGTTCCCCTACGTGGTGGCGTACGCGCCCACGGAGCCCATCCTGGCCGCCACCCGCCGGGTG
ATCCCGCCGCTGGGCGGCGTCGACGTGACGCCGGTGGTCTGGTTCGGCCTCGTCAGCTTCCTCAGCGAGATCCTCGTCGG
GCCCCAGGGCCTCCTCGTCCTCCTCTCCCAGCAGCAAGTCTCCCCCTCCCCATAGTAGCCTCCTCTTCAGCTTACCCCAA
AATACCTTCTTCTTT-----------------------------------------------------------------
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>SNPs
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--------------S---------------------------S-------------------------------------
-----------S-------------------------------------------------------------------S
---S--SSSS----------------------------------------------------------------------
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----------------------------------------------------SSS---------------------S---
-------------S----------------S-------------------------------------------------
-----S--------S--------------------S--------------------------------------------
--------------------S------------------------------S----------------------------
------------------------------------------SS---------------------S--------------
--------------------S---------------------S-------------------------------------
----------------------------------------------------------------------S---------
-------------------------------------------------S----SS------------------------
--------------------------------------------------------------------S-----------
----------S------------------------S---------------------------------------S-S--
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----------------------------S-----S---------------------S--------------------S-S
---------S---S--S---------------------------------------------------------------
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-------------------------------------------------------------------------------S
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------------------------------------------------S---------SS--S-----------S-----
---S-S-SS-SS---S-S-----------S-SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS--------S--------SSSSSSSSSS
SSSSSSSSSS--------S--S------S-SS---------------------------SSSS-SSSSS--S----S---
S--S-----------S----------------------SS-----------S-SSS-SSSSS--SS--------------
SSS------S---------S------S-----------S----S--------------SS-----------S-S------
---------SS--------S---SSSS--------S--S-----------------S-S----SS--S--S----SS---
-S-S---------S-S-----S------------------------------------------S-------SS------
----S-S-SSSSSS--------S---------SSSSS--------------S------------S--S------SSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSS
>forward_330
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----------------------------------------------------------------------GCTCATCAGG
AGGGGGAGAT----------------------------------------------------------------------
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>reverse_1236
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-----------------------------------GTCTCTCACACGCTGCTTCT-------------------------
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>forward_655
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---------------------------------------------------------------------------CTAAA
TACAAGCGGGCGAGC-----------------------------------------------------------------
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>reverse_2637
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----------------------------------------------------------------------------TGAT
TTCGGCGGCAAATGTC----------------------------------------------------------------
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