>input_sequence_81857
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------------------------------------------------------------------ATGGAGGGCGGAGA
AGGTTCTGGT---GGCGGCGAGCCGACCAAGTACCGCGGGGTGCGGCGCCGGCCGTGGGGCAAGTTCGCGGCGGAGATCC
GGGACTCGAGCCGTCACGGCGTGCGCATGTGGCTGGGCACCTTCGACACCGCCGAGGAGGCCGCGGCCGCCTACGACCGC
TCCGCCTACTCCATGCGCGGCCGCAACGCCGTGCTCAACTTCCCCGACCGGGCGCACGTCTACGAGGCAGAGGCCAGGCG
CCAGGGCCAGGGTTCTTCATCGTCGGCGAGGCAGCAGAAT------CAGCAGCAGGGGCAGAGCGGGGTGATCGAGTTCG
AGTACCTGGACGACGACGTGCTGCAGTCTATGCTCCACGACCACGACAAATCCAACAAGTAG------------------
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>chr4D_1_TraesCS4D01G001200
TCATCTTATTACATCTAGTCCATAGGATCCAAGCCATCCTCTTTTATCTATAAATGTGGCCGTATGCATCGTTCTGATGC
AGAGGCCGGGGAGTCCCCCTTTTCGAAAAAAAATAGGATCCAAGCCATCGCCGCGAACGTCGCCAACCAGAAGAGGTGTG
TCCTCCTACTGATACGTACGCCGAGAATGTGCTTATCTAGCATGGAAGTTTTTAATTAAAGAGCCGAGAGCATATGTTAT
TCTATTGATCATATGTGCGGAATAATTTGTTAACCAGCGATATGGCTTTATTGATTGATTATGTAAAAACAACACAACAT
ATCAAAGCATGAAAAGAAAAAACCAACAAAGTACCGAGAATCCCACATTTACGGCAACCCACATCAATTTAAAATCCACC
ACGTTTTCCAGAAAACTAGAGAGGGTTATACACAA------TTTTACATTATTCATGTACTAGGACGTACGTATGTGTCC
TTTGAGGTGCATGCATGCATGTAATTGAATAAGGGTTGTGTCTTCCTAG----------TATTTGCCTAATACTACTGAA
GTATTACAATTATAA------------AATTATAAAAAGAAAAG---AAACTTTGGTGTGTATGCATGCATGTAAGCATA
TATA------GATTTGA-------------AATGCATACTAGTAGGACTAATCGACGAGGTGAACCTGCCTGCCTGGTCA
GGAGGAGAGGACGTAGAGAG-------------------------------AGAGAGGACGTATGCCTTTACGCTACCCG
--------------GTCGGATTCGTTTGGAATGGTTTGGATCCGCACGTGCCGGACCCACTCCCAAATATTGACATATCC
CTTTCCCACCCT-----TTTTAAACCCTTCCCCTT-CCCCCGCCTTCTCCTTCAACCCTTCATCACCAACATCGATCAGC
ATCACCACCACTTCATTCTCTCCCTTCGT-TCCCTCCAAGCTCCACCATCGACCACTGATTTGCTAGCTAGCTAGGGTTA
CTTACCTACTCCCCAACCCCCACTTCCGGCTTCTTCATTTCTCACTACTAGC----AGTTGAGATCATGGAGGGCGGAGA
AGGTTCTGGT---GGCGGCGAGCCGACCAAGTACCGCGGGGTGCGGCGCCGGCCGTGGGGCAAGTTCGCGGCGGAGATCC
GGGACTCGAGCCGTCACGGCGTGCGCATGTGGCTGGGCACCTTCGACACCGCCGAGGAGGCCGCGGCCGCCTACGACCGC
TCCGCCTACTCCATGCGCGGCCGCAACGCCGTGCTCAACTTCCCCGACCGGGCGCACGTCTACGAGGCAGAGGCCAGGCG
CCAGGGCCAGGGTTCTTCATCGTCGGCGAGGCAGCAGAAT------CAGCAGCAGGGGCAGAGCGGGGTGATCGAGTTCG
AGTACCTGGACGACGACGTGCTGCAGTCTATGCTCCACGACCACGACAAATCCAACAAGTAG----------ATCGACCC
ACCGATGGATG--------------------ATAATACCTACTGTATCATCCCGGCC-----GGCAACATCAACCTGCAT
GCATGCGCGGGCGG-------------------------------CCGGCCATATGCTTACTAGGTACGTACGTATGTAC
GTAGATTATAGTATATGTGTACGAGAGAGAGCCTGCGAGCTCATCGACGATCGATGAAGATCGTGCGTGTGGTGCATTCT
GATGCATGAGGAT----TCCATCGACTCGACCCTCTACCATATATTTGATGGGTCGATCGAGTAATTTGCAACC---AAT
AATCCAATGGGTGATGGGTTTTCAGTCTCAAATGCATGAC---ACAATCGCAATGCCTGCATTTTCAGTTATTACAGTAT
GCTTAATTAATTAATCGACTTGTATCATCAACATACATATGCATCATATATCTCAACATCAACA----CATATACTGTGA
ATGATCCTCGTACTTCCTGGCGAGATTTATTCAATGTTTGGGGAATTAAATCAAATCGCCCGCTAGCTTGTTAGTCACAC
ATGCACACGTAGGTACTCGATCACCGGCCCGGTCGGATGGTGAGGCCGGTATGT--------ATGGAACCTACCTGGAAG
CTTCTTTCTTG--------TGCATTGCAT-----AAGTAGGGCTGGCTGCTAACAGCTGAAAGTTCGATCGATGAAAGGA
ATCAAATATGCATGTCATCGATCGCCGCCGGT------------------------CCCGGCCGAGAGAAAGTAGGACGG
ACGTACGGCTGGCTGGAGCCACAGTCTAATCTAGCTTCAACAGTCGAC----CACCCAGAATGCACTCCGTCCATGAGAA
TTCATTCAGGGGCTGCGATGGATGGATGGATCGGAGCAACCGTA-------------CGTGCATGAAGCTTCTCGGAAGT
CGGAACCTGCCTGCCTTCATTCCGGCCGTCACCACCAGTACGTTCACCAACACATATGTACACAGCACACCTCTGC---T
CTGCTG---GTAGATCATC----AATTACCTGCGCGCTGAAACCAACATGGAGAAACATGTCATGTGTAACTGCACTAAC
TC--AATCTCCTACTC
>chr4A_359
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--------------------------------------AATCCAACATTTACGGCAGCCCACATCAATTTAGAATCCACC
ACGTTTTCCAGAAAACTGGAGGGGGATTATATGTACATGAGTTTTACAGGCATGTACT------AAGTACGTATGTGTCC
TTTGAGGTGCATGCATGCATGTAACTGAATAAGTGTTGTGTCTACATAC----------TAG-TGCCAAATACTTATATG
TAGCACATACATCTGGAGATTATAATTAATTATAGAAAGAAACTTTGGTT-----GTATGCATACATGCATGTAAGCATA
TACTATATTATGATATGAAGTGCAATGCATAATGCATAGG---AGGA---------------------------------
--------------------------AGAGTAGAGTAGGCACTCGAGACGTAGAGTGGACGTATGCCTTTACGCTACCCG
GGAAGGAA----TGGTCGGATTCGTTGGGAATGGTTTGGATCCGCACGTGCCGGTCCCGCCTCCAAATATTGACATATCC
CTTTCCCACCCTCTGCTTTTTAAACCCTCCGACTC-CCCCCGCCTTCTCCTCCAACCCTTCATCACCAACATCGATCG--
---ATCAGCACTTCATTCTCCC---TCGT-TCCATCCAAGCTCCACCATCCATCACTGATTTGCAC-----------TTA
CCTAGCTACTCCGCAACCCCCACTTCCGGCTTCTTCATTTCTCACTACTAGTACGTAGTTGAGATTATGGAGGGCGGAGA
AGGATCCGGTGGCGGCGGCGAGCCGACCAAGTACCGCGGGGTGCGCCGCAGGCCGTGGGGCAAGTTCGCCGCGGAGATCC
GGGACTCGAGCCGGCACGGCGTGCGCATGTGGCTCGGCACCTTCGACACCGCCGAGGAGGCCGCGGCCGCCTACGACCGC
TCCGCCTACTCCATGCGCGGCCGCAACGCCGTGCTCAACTTCCCCGACCGGGCGCACGTCTACGAGGCCGAGGCCAGGCG
CCAGGGCCAGGGCTCTTCGTCGTCGGCGAGGCAGCAGAATCAGCAGCAGCAGCAGGGGCAGAGCGGGGTGATCGAGTTCG
AGTACCTGGACGACGACGTGCTGCAGTCCATGCTCCACGACCACGACAAATCCAACAAGTAG----------ATCGATGG
ATCATCCATCCATCCATCCATGGATCGATCCATAATACCTACTGTATCATCCCGGCCCGGCCGGCAACATCGACCTGCGT
GCATGCGCGGGCGCGGATGCAATCTACACTACCTACCTATGCATTCCGGCCATATAT----------------TAGGTAC
GTAGAT-----TATATGTGTACGAGAGCCTACGAGC--------------TCGATGAAGATCGTAC--GTGGTGCATTCT
GATGCATGAGGAT----TCCATCGACACGACCCTCTACCATATATTTGATGGGTCGATCGAGTAATTTGCAGCCAGTAAT
CCAATCGATGATATGGGGTTTTCAGTCTCAAATG----AC---ACAATCGCAATGCCTACATTTTCAGTTACA-------
GTATGCTTAATTAACCGACTTGTATCATCAACATATATATGCATCGATCATCTCAACATCAACATATATACATACTGTAA
ACCATCCTCGTACTTCCTGGCGAGATTTATTCAATGTT-GGGGCATTAAATCAAATGGCCTGCTAGCTTGTTAGTCACAC
ATGCACATGTAGGTACTCGATTACCGGCCCGGTCGGAGAG------------GT--------ATGGAACCTACCTGGAAG
CTTCTTTCTTTCATTCATATGCATTGCATAAGGGAAGTAGGGCTGGCTGCTAACAGCAGCTGAAAGATG-GATGGAAGGA
ATCAAATATGCATGTCATCCATCGCCGCCGGTCCCGGTCCCGGTCCCGGCCCCCGCCCCGGCCGAGAGAAAGTA----GG
ACGTACGGCTGGCTGGAGCCACAGTCT----------CAACAGTCGACCATGCACCCAGAATGCACTCCGTCCATGAGAA
TTCA----GGGGCTGCGAT-------------GGAGCAACCGTA-------------CGTGCATGAAGCTTCTCGGAAGT
CGGAACCTGCCCGCTTTCATTCCGGCCGTCACCACCA----GTAGGTACGTTCAC-------CAACACACCTCTGCTATT
CTGCTGCTGGTAGATCATCGATTAATTACCTGCGCGCTGAAACCAACATGGAGAAACATGTCATGTGTAACTGCACTAAC
TCTCAATCTCCTACTC
>chr4B_362
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-----------------------------------------CCCACATTTACGGCAACCCGCATCAATTTAAAACCCACC
ACGTTTTCCAGAAAACTAGAGGGGATTATACAGAA------TTTTACAGGCATGTATT------ACGTACGTATGTGTCC
TTTGAGG----TGCATGCATGTAACTGAATAAGTGTTGTGTCTACATGCTGCTACTGCCTATTTGCCTAATACTACTAGG
AGTAGC--ACATCTGGAGATAATTAATAGTTACAGAAAAGGTGTATAAAACTTTGGTGTGTATGCATGCATGTAAGCATA
TATATATATAGATTTGA-------------AATGCATACG---AGGACTAATCGACGAGGTGAACCTGCCTGCCTGGTCA
GGAGCCTGAGTAGAGTAGAGTAGAGTAGAGTAGAGTAGGCACTCCGGACGTAGAGAGGACGTATGCCTTTACGCTACCCG
GGAAGGAAGGAATGGTCGGATTCGTTGGGAATGGTTTGGATCCGCACGTGCCGGGCCCATCCCCAAATATTGACATATCC
CTTTCCCACCCTCTCCTTTTTAAACCCTCCGACTCCCCCCCGCCTTCTCCTTCAACCCTTCATCACCAACATCCATCCAT
C-CATCAGCACTTCATTCTCCCCCTTCAACTCCCTCCAACCTCCACCATCGACCACTGATTTGCTAGCTAGCTC------
----------CCCAAACCTCATTTTCCGGCTTCTTCACTTCATTACTAGTTTAATC--TTGAGATCATGGAGGGCGGAGA
AGGTTCTGGTGGTGGCGGCGAGCCGACCAAGTACCGCGGGGTGCGGCGCCGGCCATGGGGCAAGTTCGCGGCGGAGATCC
GGGACTCGAGCCGGCACGGCGTGCGCATGTGGCTCGGCACCTTCGACACCGCCGAGGAGGCCGCGGCCGCCTACGACCGC
TCGGCCTACTCCATGCGCGGCCGCAACGCCGTGCTCAACTTCCCCGACCGGGCGCACATCTACGAGGCCGAGGCCAGGGG
CCAGGGCCAGGGTTCCTCATCGTCGTCCAGGCAGCAGAAC---CAGCAGCAGCAGGGGCAGAGCGGGGTGATCGAGTTCG
AGTACCTGGACGACGACGTGCTGCAGTCCATGCTCCACGACCACGACAAGGGCAACAAGTAGTGGATCGATCATCGACCG
TTCGATCGATG--------------------ATAATACCTACTGTATCATCCCGGCCCGGCCGGCAACACCGACCTGCGT
GCATGCGCGGGCGCGGATGCAATCTACACTACCTACCTACGCATTCCGGCCATATAT----------------TAGGTAC
GTAGAT-----TATATGTGTACGAGAGCCTACGAGC--------------TCGATGAAGATCGTAC--GTGGTGCATTCT
GATGCATGAGGATTTCATCCATCGACTCGACCCTCTACCATATATTTGACGGGCCGATCGATCGATTTGCAGCCAATAAT
AATCCAATGGTTGATGAGTTTTCAGTCTCAAATG----ACTCAACAATCGCAATGCCTACATTTTCAGTTATTACAGTAG
GTATGCTTAATTAATCGACTTGTATCATCAACATATAT-------------CTCAACATCAACATAGACATATACTGTGA
ATGATCCTCGTACTTCCTGGCGAGATTTATTCAATGTT-GGGGAATTAAATCAAATCGCCTGCTAGCTTGTTAGTCACAC
ATGCACAC----GTACTCGATTACGGGCCCGGTCGGAGAG------------GCCGGTGTACATGGAACCTACCTGGAAG
CTTCTTTCCT------ATATGCATTGCA-AAGGGAAGTAGGGCTGGCTGCTAACAGCAGCTGAAAGATG-GATGAAAGGA
ATCAAATATGCATGTCATCGATCGCCG------------CCGGTCCCGGCCCCCGCCCCGGCCGAGAGAAAGTA----GG
ACGTACGGCTGGCTGGAGCCACAGTCTAATCTAGCTTCAACAGT---------------------CTCCGTCCATGAGAA
TTCA----GGGGCTGCGAT-------------GGATGGATGGATGGATGGGAGCAACCGTGCATGAAGCTTCTCGGAAGA
CGGAACCTGC----TTTCGTTCCGGCCGTCACCACCA----GTTCACCAACACATATGTACACAGCACACCTCTGCCGTT
CTGCTG---GTACATCATC----AATTACCTGCGCGCTGAAACCAACATGGAGAAACATGCCATGTGTAACTGCACAGAC
TC--AATCCCCTACTC
>SNPs
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS------------------------------------------
---------------------S----------S---------------SSSS-SSSS-SSSSSS----------------
------------------------S--------S---------S-S--S----------------------------SSS
SSSSSSSS-SSSSSS-------------------S-------SS------------------------------------
---------------------------------------SSSS-------------------------------------
----SSSSS-SS-SSS----------------------------------------------------------------
--------------------------S---------------------------S-----S-------------------
----------------------------S-SS--S------------------------------------------SSS
SS--S--S------------S----------------------------------------------------SSSS---
-S--S----------------------------------------------S----------------------------
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-------------S--------------------S---------------------------------------------
--------------------------------------------------------------------S-----------
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----------------------------S--------------------------------------------------S
-S----S----------------------------------------------------------------S------S-
-------------S-----------------------------------------SSSSSSSSSSSSSSSSSS--S----
------SSSSS----------------SSSS-SS--SSSSSSSSSSSSSS--------------S-SS------------
-----------------------------------------------------------------------S--------
----------S-----------------------SSSS--------------------S--------------------S
-SS-SS-----------------------------S---------SSSS-------------------------------
--------------------------------------S---------------------S-------------------
---------------------S---------------SS-SSSSSSSSSSSS----------------------------
----------S----------------------------------------------S-SSSSSSSSSSS----------
--------------------------------------------------------------------------SSSS--
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----SSSS-----------SSSSSSSSSSSSS------------------------------------------------
-----------S--S----------------------SSSS---------------------------------------
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>forward_827
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-------CTACCCGGTCGGATTCGTTT-----------------------------------------------------
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>reverse_2119
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--------------------------------------GGTGAGGCCGGTATGTATGG----------------------
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