>input_sequence_78829
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-------------------------------------------------ATGGCGCTGCATGGCGGGTACACGGAGCACT
TCGTGGGCAGGGTGTCCAGCCTGGCCCGCCGCGTCTCCCGCGCCACCCGCCGCCTCCTCCGCCACCGCCTCCGCTACGGC
GTCAGCGCCTCCTCCTCCTCCTCCTC---GCGCAGGAGGACGCGCCCCGTCGTCGACCCCGCCGCGGGCAGCGGCAGCGG
CAGCGTCGCCGACTCGCGGCGGCAGCCGGCCGGCGGCGTTGTGCCGACGGCGGACGGCAAGGGAGACGTCGCCGACGCCG
ACGCCGAGAACGAAGAGGATGACGGCATCTGGCGCCGCGCGATCCTGATGGGGGGCCGATGCCAGCCGTTGGACTTCGCC
GGGGCGATCCACTACGACAGCTTCGGCCGCCGCCTGGCGCGCCCGCCCTCGGCGGCGCCGCGCTGCGCGTCGTCGCTGTC
GTGCCGCTCCTCCGACAGCCTCGCCACCTACCTCGAGACCACCGAGGTGTGA----------------------------
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>chr1B_1_TraesCS1B01G463800
ATGCTTTTCACATATCTGCCATCCATGATCATAATTAAGGCCGATATCACCCTCTTCGGCAAGGTTGGAATGGGCTAGTT
TGTGAGAATTCATGTCC-AATTGGAGTTAAGATTAAACTCCTAACAAATGTGTGTTTACAAAACTGAATACGTGCATTGC
TCATTTTTT---TTGGAAACGAACTTCAGATCTATTCATCATCTATCAAGAAAGTACAAAGAATGCCAGAAGTAACTAAA
AATCACATCCAAATTCATAGACCGCCTAGCGAAAGTTACAAGCACTGAAGTGAGCCGAAGGGGCGCCGTCACCATCGAGC
GGAGCCGGAGAAACATTGTTGTAGTAAATAATTGAAAAGTTGTCGTACTAAGGCCTAATAGGACCAGCCCACGAGAACAT
CAACCGTCGTTGATGACGAGAATTGCTGACCGAAGGGATCCAACCTGTAGACACACGGACCCACACAAACGAGCACGGGT
GACCTGCCTACACTAAGGCTCTTTGGACCCGTCTCTCACTAACGGCTTTCTTTTTGCAGAACCTCTTAATAACATGCTGC
CCCACAAAAATCAGTGAAACATC-GAGCGAAAAACTTTCATCTCAAGGTGGAGTGGCTAAACTGGGAATGTATTCCCATT
TTCACATGGCCATTATTTTTTGAGAAACAAAGAACTTT---TGAGAATTCCGAGGATCTTGACCATTTGGATGGTA---A
AAAAGAAAAGATGAAGGACAGATAAAAAGGCC-------------------------------ATGCATGCACCATGCAA
GCCAAAGCCGCTCGCTCTAGCTTTCCTTGACATGA-----ATAAAAGCTACGTCGTACGTATTGGTAGCTGGCGCGGTGA
GTCAAAGCAAACCCCGAACATCCCGCGCTCGCGCACCCCGATAAGTTCGACCACTCCATCCTCTGCTGCTCACTCGCACT
CAACAACCTGGACTGCTTCTTGGGCGCACGGATCACATCTCCAGACCAC-------------------------------
-----------CGGATCGCGCGCGCGCCGCCGGGTACCGAGCGCCGGCCATGGCGCTGCATGGCGGGTACACGGAGCACT
TCGTGGGCAGGGTGTCCAGCCTGGCCCGCCGCGTCTCCCGCGCCACCCGCCGCCTCCTCCGCCACCGCCTCCGCTACGGC
GTCAGCGCCTCCTCCTCCTCCTCCTC---GCGCAGGAGGACGCGCCCCGTCGTCGACCCCGCCGCGGGCAGCGGCAGCGG
CAGCGTCGCCGACTCGCGGCGGCAGCCGGCCGGCGGCGTTGTGCCGACGGCGGACGGCAAGGGAGACGTCGCCGACGCCG
ACGCCGAGAACGAAGAGGATGACGGCATCTGGCGCCGCGCGATCCTGATGGGGGGCCGATGCCAGCCGTTGGACTTCGCC
GGGGCGATCCACTACGACAGCTTCGGCCGCCGCCTGGCGCGCCCGCCCTCGGCGGCGCCGCGCTGCGCGTCGTCGCTGTC
GTGCCGCTCCTCCGACAGCCTCGCCACCTACCTCGAGACCACCGAGGTGTGATCCCTAGATGGA----CGGGGCTGCATG
CCGCCGATCTGCTTCTTCTTCTT---CTTCCGTCGTACGATTGCTGCTCCGGCCCGCCTGAATCATAAGAAGAGAGAGAT
GTGTGGCGATCGCGCGTTGCTAGCTA-----GATTCATTAGCAGTAATTCGGTCTTTCTCTGGCTAGGTTTTTTGTTGAT
TAATTTTGCACATAATGAGTAGAACGATTCTTTCTCGTTCCAATATTTTGTTTTTTTTCCGAGAAAAACATCCAATCTAT
TCGCTTCAGTCATGGCAGTACAATGAACACTAGAGATATTTTGTTGACGCAATTGTTTCCGGGCTTA----TAATGAGTA
CCAGAAGCACCGGCGTGCGATTTGTTCCTT--TTCTTCTTCTATTTGTTTCAGTAGAACACACAGTGAATGAGACAACTT
CGATCTACTCATGTCAAAATCTTTTTGTGCAGTTCTTTTGTTGATCGGTTGGATCATCCGTTTTGTTCTAGGTG------
--------------------TAGGTTTCGCTTGTGTTGCTCATTCAAGTTCAACCAACCATGCATGACGGTGAAGTTCTT
ATGCTCCAACTTCAAGAACACACTACATGCACGCGAAGGCTAAAAAAAAAT-ACTTAGACACTGCCCCTTGGATGATGCA
CCATCGAT------GATTGAGAGACTTTGCACCACGGTTGCGGATGAGCGCATCGGATTAGGGCTTAAAGCGTTTGTGTT
CATGGAACCAAGAGTGAATG---GCCTAAAATGTTGTGCCCTTTTGCTCTGTGTCATGGATTTGATCAATGGCAGTGGCC
AACCATGCATCAC---ACAACTCGTCCTCCCGCATATTGAAGCTTTCTACTCTACCCCTTTTCTTCGGATCAACAACAAA
TTCATCCAGATCATTGTTGCCACCATTCTCCTCTTGCTCCGGTTGTCTTGTAACCCAATCCTACTGCT-----TCCACGC
CTGGCTGGCCGGACTGGGTGTAGCCCGGTTGCGTGCCTTGTTGGGTGTATGTATCGGACTGGGTGTACGTATCG
>chr1D_1
ATGCTTTTCACATATCCGCCATCCATGAGCATAATTAAGGAGGATAGCCCCCTCTTCGG------TGGAATGGGCTAGTT
TGTGAGAATTCAAGTCTAAATTGGAGTTAAGATTAAACTCCTAACAAATGTGTCTTTACAAAACCGAACATGCGCATTGC
TCTTTTTTT---TGGGAAAA-AACTTCTAATCTATTCATCATCTATCAAGGCAGTATAATGAACGCCAAAAGTAACTAAA
AATCATATCCAAATTCATAGGCCATGTAGCGACGACTGCAAGCACTGAAGCGAGCCGAAA-GGCGCCGCCGCCATCAAGC
AGAGTCGAAGAACTGTGGTT------------------------------AGGCCTCATAGGATCAGCGCACGAAAACAT
CAACCGTCGCAGCTGAAGATAATTGCTGATCGAAGCGATCCAACCCACA---------------------GAGCACGGGT
GACGGGCCTACACTATGGTTCTTTTGACCC-----------------TTCTTTTTGCAGAAACTTTTAATAACATGCTGC
CCCACAAAGATCAGTGAAACATC-GAGCGAAAAACTTTCATCTCAAGGTGGAGTGGCTACACTG----TGTATTCCCA-T
TTCACATGACCATTATTTTTTGAGAAACAAAGAACTTT---TGAGAATTCCGAGGA-CTTGACTATTTGGATGGTA---A
AAAA----AGATAAAGGGCAGACAAAAAGGCCGGAGGTTGAGTCAAAGATGGAAGAGCGTGCCATGCATG---CATGCAA
GCCAAAGCCGCTCGCTCCAGCTTTCCTTCACATGA-----ATCAAAGCTACGT---ACGTATTGGTAGCTGGCGCGGTCA
GTCAAACCAAACCCCGAACATCCCGCGCTCGCGCACCCCGATAAGTTCGACCACTCCATCCTCTGCTGCTCACTCGCACT
CAACAACCTGGACTGCTTCCTCTCCCC---GATCACATCTCCAGACCAC-------------------------------
-----------CGGATCGCGCGCGCGCCGCCAGGTACCGAGCGCCGGCCATGGCGGTGCATGGCGGGTACACGGAGCACT
TCGTGGGCAGGGTGTCCAGCCTGGCCCGCCGCGTCTCCCGCGCCACCCGCCGCCTCCTCCGCCACCGCCTCCGCTACGGC
GTCAGCGCCTCCTCCTCCTCCTCCTCATCGCGCAGGAAGACGCGACCCGTCGTCGACCCCGCCG---GCAGCGGCGGCGG
CGGCGTCGCCGAATCGCGGCGGCAGCCGGCGGGCGGCGTTGTGCCGGCGGCGGACGGCAAGGGAGACGTCGCCGACGCCG
ACGCCGAGAACGAAGAGGACGACGGCATCTGGCGGCGCGCGATCCTGATGGGGGGCCGGTGCCAGCCGCTGGACTTCGCG
GGGGCGATCCACTACGACAGCTTCGGCCGCCGCCTGGCGCGCCCGCCCTCGGCGGCGCCGCGCTGCGCGTCGTCGCTGTC
GTGCCGCTCCTCCGACAGCCTCGCCACCTACCTCGAGACCACCGAGGTGTGATCC----ATGGA----CGGGGCTGCACG
CCGTCGATCTGCTTCTTCTTCTTCTTCTTCCGTCGTTCGATTGCTGCTCCGGCCCGCCCGAATCAT---AAGAGAGAGAT
GTGTGGCGATCGCGCGTTGCTAGCTACAATAGATTCATTAGCAGTAATTCGGTCTTTCTCTGGCTAGGTTTTTTGTTGAT
TAA-TTTGCACATAATGAGTAGAACGATTCTTTCTCGTTCCAAT------------------------------------
-------------------------------------ATTTTTTTGACGCGATTGTTTCCGGGCTTATAATTAATGAGTA
ACAGAAGCACCCGCGTGCGATTTGTTCCTGTCTTCTTCTTCTATTTGTTTCAGTAGAACACACAGTGAATGGCGCAACTT
CGATCTACTCGTGTAAAAATCTTGTTGCGCTCTTCTTTTGTTGATCAGTTGGATCACCCGCTTTTTTCTCGGTGCGATGG
GTGATGCTCTTGGCAATGTATAGATTTCACCTGTGTTGTCCATTCAAGTTCAACCAACAATGCATGACGGTGAAGTTCTT
ATACTCCAACTTCAAGAACACACTGCACGCACGGGGAGGCTAGAAAAAAAAAACTTCAACACTGCCCCTTGGATGATACA
CCATCGAT------GA------GACTTTGCGCCACGGTTGCGGATGAGCGCGTCGGGTTAGGGCTCGAAGCGTTTGTGTT
CATGGAACCAAGAGTGAATGTTGGCCTACAATGTTGTGCCCTTTTGCTCTGTGTCATAGATCGGATCGGTGGTAGTGGCC
AACCATGCATCACACAACAACTCGTCCTCCCGTATGTTGAAGCTTTCTACTCTTACCCTCTTCTTCAGATCGATAACAAA
TTCATCCAGATCATCGTCGCCACCGCTCTCCTCCTGCTCTTGTTGTCTCGTAACCCAATCCTACTGTTGTGTGTCCACAC
CTGGCTGGCCGGACTGGGTGTAGCCCTGTTGCGTGCCCTGCTGGGTGTATGTACTGGACTGGGTGTACGTGTCG
>chr1A_50
CCCATC------------------------------------------------TTCGGCGAGGATGGAATGGGCTAATT
TGTGAGAATTCAAGTCTACATTGGAGTTAAG---AAACTCCTAACAAATGTGTGTTTACAAAATTGAACACGCGCATTGC
TCATTTTTTCTTTGGGAAAA-AACTTCTGATCTATTCATCATCTATCAAGGCAGTACAAAGAACGCTTGAAGTAACTAAA
AATCACATCCAAATTCATAGACCACCTAGCGACGACTAAAAGCACTGAAGCGTTCCGAAGATGCGCCCCCGCCATCGAGC
GGAGTCGGAGAAACATTGTTGTAGTAAACAATTGAAAAGTTGTTGTGTTAAGGCCTCATAGGACCAGCGTACGAGAACAT
CAACTGTCGCCGATGTT-AGAATTGCTGATCAAAGCGATCCAACATGTAGACACACAGACGCACACAAACGAGAACGGGT
GACGGGTCTACACTGAGGTTCTTTTGACCCTTGTCTCACTAACGGCTTTCTTTTTGCAGAACCTCTTAATAACATGCTGC
CCCGCAAATATCAGTGAAACATCAGAGCTTAAAATTTTCATCTTGAGGTGGAGTGGCTAAACTGGGAATGTATTCCCATT
TTCACATGACCATTATTTTTC-AGAAACAAAGAACTTTTGCTGAGAATTCCGAGGATCTTGACCATTTGGAGTGGTAATA
AAAA----AGATAAAGGACAGATAAAAGGGCCGGAGGTTCAGTCAAAGATGGAAGAGCGTGCCATGCATGCAGCATGCAA
GCCAAAGCCGCTCGCTCTAGCTTTCCTTCACATGACATGAATAAAAGCTACGT---ACGTATTGGTAGCTGGCGCGGTGA
GTCAAAGCAAACCCCGAACATCCCGCGCTCGCGCACCCCGATAAGTTCGACCACTCCATCCTCTGCTGCTCACTCGCACT
CAACAACCTGGACTGCTTCCTCTCCCC---GATCACATCTCCAGACCACATTTCCCGGCCTTGCCTCCGATCAATCACAT
CTCCAGACCACCGGATCGCGCGCGCGCCGCCGGGTACCGAGCGCCGGCCATGGCGGTGCATGGCGGGTACACGGAGCACT
TCGTGGGCAGGGTGTCCAGCCTCGCCCGCCGCGTCTCCCGCGCCACCCGCCGCCTCCTCCGCCACCGCCTCCGCTACGGC
GTCAGCGCCTCCTCCTCCTCCTCCTCATCGCGCAGGAAGACGCGCCCCGTCGTCGACCCCGCCG---GCAGCGGCAGCGG
CAGCGTCGCCGAATCGCGGCGGCAGCCGGCGGGCGACGTTGTACCGACGGCGGACGGCAAGGGAGATGTCGCCAACGCCG
ACGCCGAGAACGAAGAGGACGACGGCATCTGGCGCCGCGCGATCCTGATGGGGGGCCGGTGCCAGCCGCTGGACTTCGCG
GGGGCGATCCACTACGACAGCTTCGGCCGCCGCCTGGCGCGCCCGCCCTCGGCGGCGCCGCGATGCGCGTCGTCGCTGTC
GTGCCGCTCCTCCGACAGCCTCGCCACCTACCTCGAGACCACCGAGGTGTGAAGTGTGATCGATGGACCGGGGCTGCATG
CCGTCGATCTGCTGCTTCTTCTTCTTCTTCCGTCGTTCGATTGCTGCTCAGGCCCGTCCGAATCAT---AAGAGAGAGAT
GTGTGGCGATCGCGCGTTGCTAGC-----TAGATTCATTAGCAGTAATTCGGTCTTTCTCTGGCTAGGTTTTTTGTTGAT
TAA-TTTGCACATAATGAGTAGAACGATTCTTTCTCGTTCCAAT------------------------------------
-------------------------------------ATTTTGTTGACGCGATTGTTTCCCCGCTTA----TAATGAGTA
CCAGAAGCACCCGCGTGCGATTTGTTCCTT--T--TTTTTCTGTTTGTTTGAGTAGAACACACGGTGAATGAGACAACTT
CGATCTACTCGTGTAAAAATCTTGTTGGGCGGTTCTTTTGTTGGTGGGTTGGATCGTCGGTTTCTCTCTCCGTGTCATGG
GTGATGCTTTTGGTAATGTATAGATTTCACTTATATTGTTTATTCAACTTCAACCAACAATAAATGATGATGAAGTTCTT
ATGCTTGAACTTCAAGAACACAGTACACGCACAGAAAGGCTAAAAAG--AAAACTTCGACACTGCCCCTTGGATGATAAA
CCATCGATGATTGAGA------GACTTTACGCCACGGTTGCGGATGAGCGCGTCGGATTAGGGCTCGAAGCATTTGTGTT
CATGGAACCAAGAGTGAATGTTGGCCTAGAATGTTGTGCCCTTTTGCTCTATGTCACGGATCAGATCAATGGCAGTGGCC
AACCATGCATCACACAACAACTCGTCCTTCCGTATGTTGAAGCTTTCTACTCTACCCCTCTTCTTCAGATCGATAACAAA
TTCATTCGGATCATCGTCGCCACTGCTCTCCTCCTGCTCCCGT----------------------------TGTCCACAC
CTGGCTGGCCGGACTGGGTGTAGCCCTGTTGCATGCCCTGCTGGGTGTATTTGTCAGACTGGGTGTACGTGTCG
>SNPs
----------------S-----------S-----------SS----S-S-----------S---S---------------
------------S---S---------------------------------------------------S---S-------
-------------S-----SS------S----------------------SS-----------S----------------
-----------------------S--------SSSS--------------S---------S-------S-S---------
----S-----------------------S--------------S--SS--------S-----------S-----------
---------SS-----S------------S-----S--------------------S---S-------------------
---SS-------------S-----S-----S-S-----------------------------------------------
--------S-----------------------------------------------------------------------
--------S-----------------------------------------------------------------------
----SSSS----S-----------------------------------------------------------S-------
----------------------------S------------------------SSS------------------------
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-------------------S-SSS-S-SSS--------------------------------------------------
-------------------------------------------------------S------------------------
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-------------------------------------S--------------------------SSS-------------
------------S-----------------S-------------------------------------------------
-------------------S--------------------------------------S---------S----------S
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-------------------------------------------------------S-SS---------------------
---S--------------------------------S---------------------S-------SSS-----------
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---S----------------------------------------SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS-------------S-----------------------------
-----------S--------------------------------------------------------------------
----------S---S--------S---S--S---------------------------------S----S----------
-----------------------S----S---------S-------------------S---------------------
---------------------------S-----S----------------S-----S--------------------S--
----------------SSSSSS--------S--------------------S-------------SS-------------
----------------------------S--------------------------------SS-----------------
--------------------------------S--S-----------------------S------S----S-S------
--------------S--S------SS-------S------S-------S-----------------S-----------S-
--------------------------S----------S--S-----------------------------S---
>forward_984
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----AACCTGGACTGCTTCTTGGG--------------------------------------------------------
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>reverse_1932
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-----------GGCGTGCGATTTGTTCCTTT-------------------------------------------------
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