>input_sequence_77568
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-----ATGGGCATCCAGGCGAGCCGCGCCCTCGCCGCGCTCCTCCTGGCGGCGCTGGCCGCCGCGACCCCGCGCGGCGCC
TCGGCGGTGGTGCAGTGCGGCCAGGTGACGCAGCTGATGGCGCCCTGCATGCCGTACCTCAGCGGCGCCCCCGGGATGAC
GCCCTACGGCATCTGCTGCAACAGCCTCGGGGTGCTCAACCAGCTCGCCGCCACCACCTCCGACCGCATCGCCGCCTGCA
ACTGCGTCAAGGCGGCCGCCAGCGGC---TTCCCGGCCGTCGACTTCAGCCGCGCCGCGGCGCTCCCTGCCGCCTGCGGG
CTCGCCATCAACTTCGCCGTCACCCCCAACATGGACTGCAACCAGTATGTACCACTACGCATGCATGCACTGATGCACGC
GTACCGATATTTCATGAATTCCATGGATGCAAACATGCAAATTAAATATGCCTAGGGTCTTCTTCATCTGATCTTCATTT
TTTGATTCGATCGTCGTTGCATTCATGCAGGGTTACGGATGAACCCTGA-------------------------------
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>chr3D_1_TraesCS3D01G152900
GGCATACCCCTGGCGGCAGCATGATCAGGAGCGTGGCCAAGCTGGCTCCTCCCACCTAAGGGTTTCATCAAAATAAATGT
CGATGCAAGGGTATCGGTTGATCACAATTTAGGCACTGCGGCGGCGGTCAGTAGGGACCAGGACAGAAGCTACTCCCTCC
GTTCGAAAAAGCTTATCCCTCGAATGGATATATCTAATACCAAGTTAGTGCTAGATATATCCATTTAAGGGACAAGCTTG
GGACAAGTTTTTCGGACGGAGGGAGTATCCAGGATCATCAGTGCTTGTCCAGGGACATCCATCGTCATTGGAAGCCATGG
CTTATAGAAAGGCTCTCTCTCTAGCGCAGGATTTGGGTATGCAAAACCTTCATATTGCATCAGACTGCAACAAGTTGTCA
ACAACATCCATGATGGGGCAGGGGGAAACTACGCGGGTATTATTTGAGGAGTTAGAGAAACGGCTAGTTCATTTTCTATT
TGTGATCGTTGTCATGAACTTTGGGCTTCTAATGTTGAAGCACATACAATAGCTAGGTATGGCGTCTCCCTTTCCCACGG
TAGACATTTATGGTTAGGCACACCACATGATTTAAATGTAATTCCAGTGAACATTACTGTTGATTAATAATGCCTAGCTA
TCTTTGCTAAAATGAAATAAAATAGGGGAGACGTAGCCGCCAGCCACACAAGTGAGCGTAGCATTACTCTGGGGCTAGTC
CAGCGTGCCGCTTGTCTTGTCTGCTCA---------------------------------T------CCGTTTCTTCA--
--GCCTTCATGCGCTCTCCCCTGCCCAACGACCCCCAAGACTCATCCGAGACGCCTGGCGCGCGCGCACCGATGACGTGC
CACAACAACCCTACGCGCTATACCCTCTTCCCCGGAAAATCTCTCCCC-TATATATGCTCGCTGGAACGGCGGCGAGTCT
GGACACCCATTAACACACAGCGAGCTCACCTCAGAGAGCTCCAAGATCACTAGCGCGTGTCCGTTCACCCTAGACCAAGA
AT-AAATGGGCATCCAGGCGAGCCGCGCCCTCGCCGCGCTCCTCCTGGCGGCGCTGGCCGCCGCGACCCCGCGCGGCGCC
TCGGCGGTGGTGCAGTGCGGCCAGGTGACGCAGCTGATGGCGCCCTGCATGCCGTACCTCAGCGGCGCCCCCGGGATGAC
GCCCTACGGCATCTGCTGCAACAGCCTCGGGGTGCTCAACCAGCTCGCCGCCACCACCTCCGACCGCATCGCCGCCTGCA
ACTGCGTCAAGGCGGCCGCCAGCGGC---TTCCCGGCCGTCGACTTCAGCCGCGCCGCGGCGCTCCCTGCCGCCTGCGGG
CTCGCCATCAACTTCGCCGTCACCCCCAACATGGACTGCAACCAGTATGTACCACTACGCATGCATGCACTGATGCACGC
GTACCGATATTTCATGAATTCCATGGATGCAAACATGCAAATTAAATATGCCTAGGGTCTTCTTCATCTGATCTTCATTT
TTTGATTCGATCGTCGTTGCATTCATGCAGGGTTACGGATGAACCCTGAGATCGGACCGGAGAACCACACGCACGCAACG
TACACAGAGGAAAAACTTAGGTGTTGGACTGACCAAAATAAAATCAGCAAAGATAGTACTATAAGATTGAATCAAGGGCC
TTCAATCATGCATGTGCCGCACTGTTTAGTTGATTAATATATAATTCAATTGTTATCCTGATGTATTATTTCTGTGCTTA
T--TGGAATAAAGTATATGCATGCTAGTATGTTA----------------------------------------------
-----------------AATGACTTGTTTCTCTAATTAACGTTGACTTCATCAGCTTAGGG-CATCTTCGCCTTGCCACC
TCGGGTCGG--ATGTTGCATGGTCTTTT-CGACCTTGAACGGAACCTCTACCGTAGTTTGTTTCAGTGCACTGCGTTTGC
GTCGCCTCTGCTGGTCCTTGTTTGCGACCTTGTACCGAAGCAGTACCTTTCGGCCTCGGTCCAAGGCCGGACGACAGCCT
TCCTTCTATTTTTTTATTATTTTAACGTTGATGCATCAATGCTCTCTTGCACATACACAATGAGCTAGCCATTTGATGCA
CATGCATGGCTGATGACGA----ATAACCAACCAAACTTGCGTGTGAGCATAGCGTGAGCCTT---TTCGCTTTTCGGCT
CACCAACCAATTTATATCTATACCTTATCTACTATTCTTAAATAGTTTATCCTCACTATAAGTAATACTAGTGCCCTTAA
TTCATTCCACCTTCAAAAAATGTTTTTATAATGTCTTTGTTATTATGGCTAAGTCGGTTTTTTGGTCATCGGATTTTTTT
CAATATTTGTGAATGTGATGGCATATTTGATGCTGCAATTGTGTGCCACTACTTATTTTTGTGTTCGGAACTTAAAATGA
AATTCATTTCGTGAGTGACCTACTTGAATCATAAGAATTATTGAAGTTGCACTACTAAATGCTTATTATTGCATATTGTA
CGATAGTGCAAATTCTACGAAGTCTGTTACAAGTTTTGGTCATCATTTGCTTTGAGTTTTTCTTCATTTATTTCTTCTTT
TAGCG
>chr3A_655
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--------------AAATAAAACAGGGAAGGCGTTGCCACCAGCCACACAAGTGAGCGTAGCATTACTTTGGGGCTAGTC
CAGCGTGCCGCTTGTCTTGTCTGCTCA---------------------------------TACCAGTCCGTTTCTTCAGC
CTGCCTTCATGCACTCTCCCCTGCCCAACGACCCCCAAGACTCATCCGAGACGCCTGGCGCGCGCGCACCGGCGACGTGC
CACAACAACCCTACGCGCTATACCCTCTTCCCCGGAAAATCTCTCCCC-TATATATGCTCGCTGGAACGGTGGCGAGTCT
GGACACCCATTAACACACAGCGAGCTCACCTCACAGAGCTCCAAGCTCGCTAGCGCGTGTCCGTTCACCCTAGGCCAAGA
AC-AAATGGGCATCCAGGCGAGCCGCGCCCTCGCCGCGCTCCTCCTGGCGGCGCTGGCCGCCGCGACCCTGCGGGGAGCC
TCGGCGGTGGTGCAGTGCGGCCAGGTGACCCAGCTGATGGCGCCCTGCATGCCGTACCTCAGCGGCGCCCCCGGGATGAC
GCCCTACGGCATCTGCTGCAACAGCCTCGGGGTGCTCAACCAACTCGCCGCCAGCACCGCCGACCGCGTGGCCGCCTGCA
ACTGCGTCAAGGCGGCCGCCAGCGGCGGGTTCCCGGCCGTTGACTTCAGCCGCGCCGCGGCGCTCCCCGCCGCCTGCGGG
CTCGCCATCAACTTCGCCGTCACCCCCAACATGGACTGCAACCAGTACGTATCACTACGCATGCATGCACTGCCGCACGC
GTACCGATATTTCATGAATTCCATGGATGCAAACATGGA----AAGTATGCCTAGGTTCTTCTTCAACTGATCTTCATTT
TTTGATTCGATCGTCGTTGCATTCATGCAGGGTTACGGATGAACCCTGAGATGGGACTGGAGAACCACACGCACGCAACG
TACACAGAGGAAAAGCTTAGGTGTTGGACTGACCAAAATAAAATCAGCAAAGATAG---TATAAGATTGAATCAAGGGCC
TTCAATCATGCATGTGCCGAACTGTTTAGTTGATTAATATATAATTCAATTGTTATCCTGATGTATTATTTCTGTGCTTA
TATTGGAATAAAGTACATGCATGCTAGTATGTTAGTA-------------------------------------------
-----------------AAAGACTTGCATCTTTAATTAACGTTGACTTCATCAGCTT-GGG-CATCCTCGCCTTGCTACA
TCGTGTTGGATATGTTGCATGGTCCTTT-CCACCTTGTACCGAACCTCTATCGTAGTTTGCTTCAGTGCAC------TGC
GTCGCCTCGGCTGGTCCTTGTT-GCGACC---------ACTAGTACCTTTCGGACTCCGTCTAAGGCCGGACGACAGCCT
TCCTTCTAAATTTT-----TTTATTTT-----------------------------------------------------
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>chr3B_691
AGT-----------------------------------------------------------------------------
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------------------------------------------------------AGTGTAGCATTACTCCGGGGCTAGTC
CAGCGTGCCGCTTGTCTTGTGTGTTCATACCAGTCCGTTTGTCTTGTGTGTTCATACCAGT------CCGTTTCTTGA--
--GCCTTCACGCACTCTCCCCTGGCCAACGACCCCCAAGACTCATCCGAGACGCCTGGCGCGCGCACACCGGCGACGTGA
CACAACAACCCTACGCGCCACATGCTCTCCCCCAGACAGTCTCTCCCCATATATATACTGCTCGGAGCGGCGGCGACTCT
GGGCACCCATTAACACACAGCGAGCTCACCTCAGAGAGCTCCAAGCCTGCTAGCGCGTGTCCGTTCACCCTAGACCAAGA
ACAAAATGGGCATCCAGGCGAGCCGCGCCCTCGCCGCGCTCCTCCTGGCGGCGCTGGCCGCCGCGACCCTGCGGGGCGCC
TCGGCGGTGGTGCAGTGCGGCCAGGTGACGCAGCTGATGGCGCCCTGCATGCCGTACCTCAGCGGCGCCCCCGGGATGAC
GCCCTACGGCATCTGCTGCAACAGCCTCGGGGTGCTCAACCAGCTCGCCGCCAGCACCGCCGACCGCGTCGCCGCCTGCA
ACTGCGTCAAGGCGGCCGCCAGCGG---GTTCCCGGCCGTCGATTTCAGCCGCGCCGCAGCTCTCCCCGCCGCCTGCGGG
CTCGCCATCAACTTCGCCGTCACCCCCAACATGGACTGCAACCAGTACGTACCACTACGCATGCATGCACTGCCGCACGC
GTACCGATATTTCATGAATTCCATGGATGCAAACATGCAATTTAAATATGCCTAGGTTCTTCTTCATCTGATCTTCATTT
TTTGATTCGATCGTCGTTGCATTCATGCAGGGTTACGGATGAACCCTGAGATCGGACTGGAGAACCACACGCACGCAACG
TACACAGAGGAAGAGCTTAGGTGTTGGACTGACCAAAATAAAATCAGCAAAGATAG---TATAAGATTGAATCAAGGGCC
TTCAATCATGCATGTGCCGAACTGTTTAGTTGATTAATATGTAATTCAATTGTTATCCCGATGTATTATTTCTGTGCTTA
TATTGGAATAAAGTATATGCATGCTACTATGTTAAATGAAACACTACAGTCCTCTGAGGCAAAACTTTTGCCTCTGTTTG
GAAAAAAAAGTATGTTAAATGACTTGTATCTCTAATTAACGTTGACTTCATCAGCTT-GGGGCATCTTCGCCTTGCCACC
TCGGGTCGG--ATGTTGCATGGTCTTTTTCGACCTTGTACGGAACTTCTACCATAGTTTGTTTCAGTGCACTGCGTC-GC
GTCGCCTCTACTGGTCCTTGTT-GCGACCTTGTACCGAACCACTACGTTTCGGCCTCAGTCCAAGGCCGGGCGACAGCCT
TCCTTCTAATTTTT-----TTTTAACGTTGATGCATCAATGCTCTCTTGCACATACACAATGAGCTAGCCATTTGA--CA
CATGCATGGCTGATGACGATCGAATAACCAACCAAACTTGCGTGTGAGCATAGCGTGAGCCTTTTTTTGGCTTTTTGGCT
CAGCAACTAATTTATATCTATAACTTATCTACTATTCGTAAATAGTTCATCCGCACTACAAGTAAT--------------
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>SNPs
S-SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSS--------S----S--S---S---S-----------------------------------------
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------------S----------------------------------------------------------SS-------
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---------------------------------------------S--S-------------------------------
-S-------------------------------------------------------------------S---S------
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-----------------------------------------------------S----S--------S------------
-------------------------------------------------------------------S------------
-----------------------------------------------S------------------------SS------
----------------------------------------S---------------S-----------------------
---------------------------------------------------------S----------------------
--------------S-----------------------------------------SSS---------------------
-------------------S------------------------------------------------------------
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---------------------------S-----------------------------S----------------------
-------------------------------------S--------------------------------------S---
----------------------S----------------S-----------------S----------------------
--------S-----SSSSS---------------------------------------------------------SS--
--------------------------------------------------------------------S------S----
--S----S--------------S--------------S---------S----S-----S-------SSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSS
>forward_266
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------GTTTTTCGGACGGAGGGAGT------------------------------------------------------
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>reverse_2158
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-----------------------------------------------------------------------------GCA
CATGCATGGCTGATGAC---------------------------------------------------------------
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