>input_sequence_72603
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
----------------------------------------------------------ATGGCGAACACCACGCGCAAGG
AGGAGGGGCCGGACAAACGCGTCAATCAGCAGCA---------------GGGGAGCACCAAGCTCTACTCCAGGATGCTG
TCCAAGGACGTAGCCATCGCCGTCCCGTCCTTCCGGGTGTACTACGGCGTCGCCTCGGCCGGCTCCGTGCCCTTCCTGTG
GGAGTCGCAGCCGGGCACGCCCAAGAGCTCGCCCTCCGCCGCCGCGCTCCCGCCTCTCACGCCGCCGCCCTCCTACTACG
CGGCCGGCGGCAAGGGCGGCTCCAAGAGGGGCGGCGCCGGCGCGTCCGGGAGGCGCTGGCCCGGCGGCGTCATCGCCCTC
TTCCGGAGGCCCCGGCGCAGGACGTCGCCGTGCTCCTCCTCCTCCATCTCCTGGTCGTCCTCGTCGTCCACCGCATCGTC
CATGTCGCCGGTGTTCACGGTGCAGTCTTCGCCCTTCGCTGCACGGGGCTCCGCAGGCGCCCACCGACGAGCGTTCTCGG
CCGGCGACGTCTTCGAGGATGCGGCGGCGCCGTCGAGCTGCTTCGGGACGGACCGAGAGTGCGACAGGAGGGTGGTGAAG
GGCTGCGGCGTCGCCGTGGCCGTCCGGAACGCGCTGGCCACCGTCGTGGGCCACAAGCCCGGCGGCCGAGCCACCAGCGC
GATGGCCTAG----------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
------------------------------------------------------------------
>chr1A_1_TraesCS1A01G111800
CATATAAACTTTTAATTTTCTACTAAAGTATATCCATGACAAATTAATGTTTTTTCGTGTGAGCCCTTATATATATGCTT
CACATGTACTACTACATTACTATCAATGGTTGAATGACATGCATTCATCAGTAATTAAGTTATCTAGGGGGCGGTACTAG
GGGTATTCTTGGGTCTTAATGTGAATACCTATTGATTTTGGCAAAACAGTGATATTTTTTGAAAAACAACAATGATTTTG
GCAAAATGAATACAGATGAATACCCGGTTGCAAATTCCTGGAGCCGCCATGACCTAGAATGATTGATGTGTATGTCGGCT
CAGTTTCTCGAAGACGTTCATAGAGGTAGAATGTGTGTTTCACAGGAATAACTGTTTGTGCGTATATATAAATGTCTGCA
TTTATACTATTCTCTCCGTCCTATAGTGTCAAAAACATTCTTATATTATGGGACGAGAGAAAGTATGTTTTAAAAAATGG
TTGATGATAGCGTTGTGTCAAGTGCACCGGATATTCGTAGGCTAATAGGTGTTAAAAAAAGTGCAACTCTTGAAAATAAC
AGTAGGATCGAAT-AACTAGTGTAGACCTGCAGCTGGTGACATACATAATATCTAGTCGAAACTAAACTC-------AGT
TCACTCAGATATAAACCACGGTCGACACGAA------TG------GCGATCGTGACCGTTCTTTTCCAGGGTCGAAGCCG
GAACACTGGGCCCCGGCGGAGCATGGCCGGCATCTAGCTGATCTACCCACCCCGGCGATATATAATTGCCATAGCTGGCT
AGATGCCAGTGCCACTGCCCTGCAGCCTCTCCTTCTCAACTGGCTCGCACCTTCTTCCCTTCCTTCCTTCCTTCCCTTTA
CACACCCCT-----TCTCTCTCTCTCTCTCT-------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
------------------CTCTCTCTCTCTCTCTCTAGC--TACCCCTCTCTCTAATTGGGTAGTACACTAGTACGTACT
CCAGTAGCCAAGAAGCAGCTAGCTAGGG----AGAGATCAGCGTCGTTCCTGCCGGCCATGGCGAACACCACGCGCAAGG
AGGAGGGGCCGGACAAACGCGTCAATCAGCAGCA---------------GGGGAGCACCAAGCTCTACTCCAGGATGCTG
TCCAAGGACGTAGCCATCGCCGTCCCGTCCTTCCGGGTGTACTACGGCGTCGCCTCGGCCGGCTCCGTGCCCTTCCTGTG
GGAGTCGCAGCCGGGCACGCCCAAGAGCTCGCCCTCCGCCGCCGCGCTCCCGCCTCTCACGCCGCCGCCCTCCTACTACG
CGGCCGGCGGCAAGGGCGGCTCCAAGAGGGGCGGCGCCGGCGCGTCCGGGAGGCGCTGGCCCGGCGGCGTCATCGCCCTC
TTCCGGAGGCCCCGGCGCAGGACGTCGCCGTGCTCCTCCTCCTCCATCTCCTGGTCGTCCTCGTCGTCCACCGCATCGTC
CATGTCGCCGGTGTTCACGGTGCAGTCTTCGCCCTTCGCTGCACGGGGCTCCGCAGGCGCCCACCGACGAGCGTTCTCGG
CCGGCGACGTCTTCGAGGATGCGGCGGCGCCGTCGAGCTGCTTCGGGACGGACCGAGAGTGCGACAGGAGGGTGGTGAAG
GGCTGCGGCGTCGCCGTGGCCGTCCGGAACGCGCTGGCCACCGTCGTGGGCCACAAGCCCGGCGGCCGAGCCACCAGCGC
GATGGCCTAGAGAGGACAGGAGCCCTGTCCTGGCTACAGAAAGTAGCAGTGTGG--CATGTTTAATTTTCTAAATACCCG
GGGTGTGGTTTGCATTTTGTGCTAGTATAAATGTACTTGACCTGCGTTACGTACGTGTCATTTCCATGTCATGCATGGCA
AGGAAGAAAAGTGTAAACATAACGAGTAATATTATGTGGTGGTGTATTTGTATGTGCAACCGTATATACGCGCATGTATA
CGGTTACTTGGTC--GTGTCAGGCTTGTGTACTGCAAATATGTGTTCTT-GTTGTCCAGCCTAATGAAGAGTGAGGTAAT
GCAAATGAATATTTTCAGTCTATTTACTATACAATAAAGTATTGTCATTCCTTGCGAGTTGTTTT--TATAGTTTATATG
GTTTACATAATACTTTCATATGTCTTTTTAGAGAATTTTTTATCTATTTATCATCAATCATGA----CAGTACAACAAAC
ACC---AAAAAATACATTGAGATATGCAGACCACCTAGCGACACTACTACAAACAGAGTGAATCGAATATACACCGCTGA
TATCACCCTTCCCTTGCCTGAGCCGTACAAGATACATCATGGCTTCCTTTTTTACCAGTAGAATGGTTTGTACAAAAACT
AAAAAATAGAGAATGGTTTATAGTTTATACAACAGCTTTGGATTAACTATTATTTTTGTGGGGCATTTTAGATTAATTCT
GATTGAGAAATGATGACTTCTAGAGAAAACTGGAATAAAATTTCGAAGTACGACGAATACTTACCTATGCACACAGCACG
CTATAGATCGTTCTGTGGATTAGGACAGACGCATCGTCAGTAAGAAAAACTTCATAGTACGAT--GATTTTTTGAGAAAT
TTAGAGCAGCTCCAAAGAAGCGACACATTTCGGGCCTGTTCGGAAGCCCTCCAACTTCACTGAATCCACAAATCCCGCTT
CCATTTCCGGATGCCGCTTCTTTTACGAAAACTGGATCGATGAAAACTGTTCGGCACCCTCGCTCC
>chr1D_550
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
---------------------------------------------------------------------TTGACAATAAT
AGGTAGAGCAACTGAACTAGTGTAGACTTGCAGCTGGTGACATA----ATATCTAGTCTGAGTTTACCGAGATATAGAGA
TCTCTCTGATATGAACCACGGTGGACACGAA------TGGCGCTCGCGATCGTGACCGTTCTTTTCCAGGGTCGAAGCCG
AAACACTGGGCCCCGGCGGAGCATGGCCGGCATCTAGCTGATCTACCCACCCCGGCGATATATAATTGCCATAGCTGGCT
AGATGCCAGTGCCACTGCCCTGCAGCCTCTC---CTCAACTGGCTCGCACCTTCTTCCCTTCCTTCCTTCC----CTTTA
CACACGCCTCTCTCTCTCTCTCTCTCTCTCT-------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
------------------CTCTCTCTCTCTCTCTCTCGC--TA-CCCTCTCTCTAATTGGGTG--------GTACGTACT
CCAGTAGCCAAGAAGCGGCTACCTAGCAAGCTAGAGATCAGCGTCGTTCCTTCCGGCCATGGCGAGCACCACGCGCAAGG
AGGAGGGGCCGGACAAGCGCGTGAATCAGCAGCAGCAGCAGCAGCAGACGGGGAGCACCAGGCTCTACTCCAGGATGCTC
TCCAAGGACGTGGCCATCGCCGTGCCGTCCTTCCGGGTGTACTACGGCGTCGCCTCCGCGGGCTCCGTGCCCTTCCTGTG
GGAGTCGCAGCCGGGCACGCCCAAGAGCTCGCCCTCCGCCGCCGCGCTCCCGCCGCTCACGCCGCCGCCCTCCTACTACG
CGGCCGGCGGCAAGGGCGGCTCCAAGAGGGGCGGCGCCTCCGGGTCCGGCAGGCGCTGGCCCGGCGGCGTCATCGCCCTC
TTCCGGAGGCCCCGGCGCAGGACGTCGCCGTGCTCCTCCTCCTCCATCTCCTCGTCGTCCTCGTCGTCCACCGCGTCGTC
CATGTCGCCGGTGTTCACGGTGCAGTCTTCGCCCGCCGCGCGC------------GGCGCCCACCGACGAGCGTTCTCGG
CCGGCGACGTCTTCGAGGACGCGGCGGCGCCGTCGAGCTGCTTCGGGACGGACCGAGAGTGCGACAGGAGGGTGGTGAAG
GGATGCGGCGTCGCCGTGGCCGTCCGGAACGCGCTGGCCACCGTCGTGGGCCACAAGCCCGGCGGCCGAGCCACCAGCGC
GATGGC-TAGAGAGGAGTCC-------TCCTAGCTACAGAAAGTAGCAGTGTGTGGCATGCTTAATTTTCTAAATACCCG
GGGTGTGGTTTGCATTTTGTGCTAG--TAAATGTACTTGACCTGCGTTACGTACGTGTCATTTTCGAGTCATGCATGGCA
AGGAAGAAAAGTGTAAACATAACGAGTAATATTATGTGGTGGTGTGTTTGTATATGCAGCCGTATATACGCGCATGTATA
CGGTTACTTGGTC--GTGTCAGGCTTGTGTACTGCAAATATGTGTTCTT-GTTGTCCAGCCTAATGAAGAGTGAGGTAAT
GCAAATGAAAATCTTCAGTCTATTTACTAT--AATAAATTACTGTCATTCCCTGCGAGTTGTTTTTGTATAGTTTATATA
GTTTACATAATACATGTCTTT-TTTTTTCAAAAACCTTTCGATCTATTCATAATCAATCATGCATGGCAGTACAATGAAC
ACCGAAAAAAAATACATTCAGATATGCAGACCACCTAGCGACACTACTACAAGCAGAGTGAATCGAATACGCACCGTTGA
CATCACCCCTCCCTTACCGGAGCCGAGCAAAATAC---ATGGCTTCCTTTTTTACCAGTAGAATGGTTTATACAAAAAAA
AATGATAGA----------ATGGATTATACAATAACTTTAGATTAATTATTTTTTG---GGGGCATTTTAGATTAATTCT
GATTGCGAAATGACGACTTCTAGAGAAAACTGAAATAAAATTTCGAAGTACGACGAATACTTACCTCTGCACACAGCACA
CTATAGATCGTTCTGTGGGTTAGGACAGACGCGTCATCAGCAAGAAAAAGTTTCATAGTACTAGGGATTTTTAGAGAAAT
TTAGA---------------------------------------------------------------------------
------------------------------------------------------------------
>chr1B_643
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
----------ATAAACCACGGTCGACCCGAAGGCCATTG------GCGATCGTGACCGTTCTTTTGCAGGGTCGAAGCCG
AAGCACTGGGCCCGGACGGAGCATGTCCGGCATCTAGCTGATCTACCCACCCCGGCGATATATAATTGCCATAGCTGGCT
AGATGCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNCTGTCTCTCTCTCTCTATAGCTGTA-CCCTCCCTCTAATTGGGTA--------GTACGTACT
CCAGTAGCAG------------CTAGCTGGCTAGAGATCAGCGTCGTTCCTTCCGGCCATGGCGAGCACCACGCGCAAGG
AGGAGGGGCCGGACAAGC---------------------AGCAGCAGCAGGGGGGCACCAAGCTCTACTCCAGGATGCTC
TCCAAGGACGTGGCCATCGCCGTGCCGTCCTTCCGGGTGTACTACGGCGTCGCCTCGGCCGGCTCCGTGCCCTTCCTCTG
GGAGTCGCAGCCGGGCACACCCAAGAGCTCGCCCTCCGCCGCCGCCCTCCCGCCTCTCACGCCGCCGCCCTCCTACTACG
CGGCCGGCGGCAAGGGCGGCTCCAAGAGGGGCGCAGCCTCAGGGTCCGGCAGGCGCTGGCCCGGCGGCGTCATCGCCCTC
TTCCGGAGGCCCCGCCGCAGGACGTCGCCATGCTCCTCCTCCTCCATCTCCTGGTCGTCCTCGTCGTCCACCGCGTCGTC
CATGTCTCCGGTGTTCACCGTGCAGTCTTCGCCCGCCGCGCGC------------TGCGCCCACCGACGAGCGTTCTCGG
CCGGCGACGTCTTCGAGGACGCGGCGCCGCCGTCGAGCTGCTTCGGGACGGACCGAGAGTGCGACAGGAGGGTGGTGAAG
GGCTGCGGCGTCGCCGTGGCCGTCCGGAACGCGCTGGCCACTGTCGTAGGACGCAAGCCCGGCGGCCGAGCCACCACCGC
GGCGGCCTAGAGAGGAGCCCTCTCCTGTCCTGCCTACAGAAAGTAGCAGTGTGT--CATGTTTAATTTTCTAAATACCCG
GGGTGTGGTTTGCCTTTTGTGCTAG--TAAATGTACTTGACCTGCGCTACGTACGTGTCATTTCCGAGTCATGCATGGCA
AGGAAGACAAGTGTAAACATAACGAGTAATATTATGTGGTGGTGTATTTGTATATGCAGCCGTATATACACGCATGTGTA
CGGTTACTTGGTCGTGTGTCAGGCTTGTGTACTGCAAATATGTGTTCTTTGTTGTCCAGCCTAATGAAGAGTGAGGTAAT
GCAAATGAAAATCTACATTCTATTTATTA---------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
------------------------------------------------------------------
>SNPs
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS----S-----S
--SSS--S-S-S---------------S----------------SSSS----------SS-SS-S-S-SS---------S
--S---S-------------------------------------------------------------------------
S-------------------------------------------------------------------------------
-------------------------------SSS-------------------------------------SSSS-----
-----S--------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
-------------------------------------------S-------------------SSSSSSSS---------
----------------S----S----SS-----------------------S-------------S--------------
----------------S-----S--------------------------------------------------------S
-----------S-----------S--------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------SS--S------S------------------------------
--------------------------------------------------------------------------S-----
----------------------------------SS---SSSSSSSSSSSSSSSS-------------------------
-------------------S------------------------------------------------------------
--------------------------------------------------------------------------------
----------------SSSSSSS------------------------------S--------------------------
-------------------------SS--------------------------------------SS-------------
-----------------------------------------------------S----S---------------------
--------------------------------------------------------------------------------
---------S--S-----------------SS------S--S---------S---------------------------S
-------------S-SSS-S-S-S----S-S-S-SS---SS-------S--S----------S------------SS---
------------------S---------------------------------S----------------SS-----S---
S-------S------S--S------SS---S----SSS-------------------------------S--------SS
--SS-SSSSSSSSSSSSSS--S-S--------S-S----S------S----S---SSSS---------------------
-----S-------S------------------S---------------------------------S------------S
------------------S-------------S--S----S--------S--SSSSSSSSSSS---------S-------
-----SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
>forward_522
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
----------------------TGCACCGGATATTCGTAGGC--------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
------------------------------------------------------------------
>reverse_2808
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
-------AGCTCCAAAGAAGCGACACA-----------------------------------------------------
------------------------------------------------------------------
