>input_sequence_82696
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
------------ATGGTGGGCTGGCTGGTGGCGTGCTGTGCTCTACACGTTTTAGGTCCAAGGT----------------
------------CTCGAGCGGCGGCG---------GCGGCGGCGGCGGAGATGAGGGCGGTGAACGGCGAGGTGGTCTCG
TCGAAGCCGGTGGGCTTACACAAGGCCGCCCGCGTGTTCAGCCGCTTCGCGGCCAGAGAGGCGTCAAGGCTGCCCGCCGG
GGCGGGCGTGCTGGTCCTCTGCGCGGCCGAGGCCGCCGCCGAGCTCCACGCCTTCCGCTGCGCCCGTGTGGATCCCGATG
GCGAGGCTGAGACGGAGGTGGTGCAGGGCGGAGATGGGCGGCGCAAGAAGAGGAGGAAGACGGGGCGCGAAGGTGTGTTA
CTAGAGTAG-----------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
---------------
>chr4D_1_TraesCS4D01G350100
ATGCCCATGCAAGGAACACTATCCTTGAGCATAGTAAGCGAACACACTATCAGATAACAGTATAAATTAGAGATAAGGAC
TACTACTCGCACCACGCAAATCAGAGTCATCCACACTCCACAGAGTAGGCAGTACATCAAACCAATCCGTCGATCATAAT
CAT-ATAAACCAGACAGATCAGCCAGGAA--------------------------------------------ACCAACA
CGGGAGGC-CAATTCCTTGACAGATCAAGGCAACCACCACATCCTAGGTCGAAACTAATGGGAACGAAGCAGTAAAATTC
AGAGAAGCGGTCAGAACATGGGGTCAATGGGGGTGGGTAGGGTTTTCTGACCCTGTAGCCGTTGAGTTCGGTCTCGAGCT
TCTCCTTGCGCTGCTCGGCGCGGCGGTTGACGGAGTCGACCCAGGCCTGGTCGTGGCGGTAGCGCGGGCCGAGGCGGCCG
TTGATCTTGAGGACGGCGTCGAGGTAGAGCACGGTGTCCTCGCGCGCCCTGGCCTCGTCGTGCGCCATCCGCAGCGCCTC
GAGCTGGATCGCCTCCACCCCGCACCGCTCCGCGATGAAGAGGAGCCGCGCCACGCGGGTCCGGCCCGAGTACTGCGCCG
CGTACGCCTCCACGTCGAGCTGGTCGGCGGAGAC---CGGCGCCGCGGCGGCCTGCTCCCCGCCGCCCAGCCCGTTCGTC
ACCGCCGCGGCCGCGGCCGCCGAGACCTCGCAGTCCACGTCCATGCTGC---CGGGGATCGGCGGTGGGGTTCGCCGCAA
AACCCTAGAGAGAGACGGGGGAGGCGGAAGCTTCGGGAGAGGAGAGATGCCGAGGAGGGGAAAAGACGGAGGGCCTGGGT
TGGAAATAGCACGGGTGGTGCGGGCAGATATGTAAAGTTACGTTGGGCCGGGTATGGGTTTTGTTCTCAACTTGGGCCCG
AATGAACGCCCCTTTCTGGGTCATGTGCGTTGGCCCAATAATTCGTTTGGGCTAACAGGCCGAAATAGCCTCTTATATCA
CTATGTTGAAATATGGTGGGCTGGCTGGTGGCGTGCTGTGCTCTACACGTTTTAGGTCCAAGGT----------------
------------CTCGAGCGGCGGCG---------GCGGCGGCGGCGGAGATGAGGGCGGTGAACGGCGAGGTGGTCTCG
TCGAAGCCGGTGGGCTTACACAAGGCCGCCCGCGTGTTCAGCCGCTTCGCGGCCAGAGAGGCGTCAAGGCTGCCCGCCGG
GGCGGGCGTGCTGGTCCTCTGCGCGGCCGAGGCCGCCGCCGAGCTCCACGCCTTCCGCTGCGCCCGTGTGGATCCCGATG
GCGAGGCTGAGACGGAGGTGGTGCAGGGCGGAGATGGGCGGCGCAAGAAGAGGAGGAAGACGGGGCGCGAAGGTGTGTTA
CTAGAGTAGGCTCTTTTGAAAAAAA-----AAATCCATGTGTTACTGTGCTAGCGACTAGT---CTGTTGTTCTTGATGC
TGTTAAATCCATTTGTTACTGTGGTAGCGACTAGTAATAATTTGTCTGGTGTTATTCACGATG--------CATCATTTG
GGACGAGCTGTG-------TTGCGTGTGATGTATGTATCCTGCTGCTGGGTATACATTTTA-------------------
-----------------------TTTCAGTGCAATCGACTGAAA-CTTTCACTGCCACAGAGCC----------------
---------------ATGCACCTGGTGGAAAAGACGTC--TGAGCTTGTGTGCTGTGCTCTTCAGTCCATGAGTCAATCC
ATTGTTGTCCTTGAACTGTTCTTTA---AAAAATAAGCTC-AACTCTT--TTAGTTGGATGTTTAGCTTTTCAGTTTTCC
TTTTGAGCCACAACCCAACTCTGTATTATTGTTGTTGTTGGTTCTGTCCGCTGGAGTTTTATCCTCTAGACAGTTTCGTC
TGTGTCGTGTGGTGGTTGTAGTGTCGTCAGGTTTTCGCCCCACAGCTGATAGTCCGTTTCAGGGTTGTCATGCAGTGGGT
TTCCTGGCGATGCACCAACCCGCTACCCCCTTTCAGTCTCCTTTGCTTAGTAGTTGTCCTATTTGGCTTGATGCCTAGCT
TGCGATCTTCGAACGACGATACCTGACTGATGTATTTCCGTTGATTGCAAAATTAATGGAAAGGGGTGTGAGCCCGGTTG
GAAAAAAAAACTCTGTATTAAGGTTCCGTTG--TCTTGTCTGTCAGTGGAGCCTCCATGATTTTCCAAAACGAACAAAAT
TGTCGCTGTTAATTTGGTTCTGAGGTCTGAACTCGTGTGCGTTGGAACTTCACTCTCAGAGCCTC-------------GA
GAAAGAGACGGATACTTGTGTTGTTTTAACACCTTTCAGCCTGAGCTAGAACGTTACTCAAGCTGC-----CGGATGCCA
TTGGCTCAGACATTAGTGAGAGTGAGTACACAAC-TATTGCCGACTCGCCCGCACCTCTGCTTCACCTGGCCGTGGCCAG
CAAGAAGATCCCAAC
>chr5A_1
ATGCTCATGCAAGGAACACTATGCTTGCACATAGTAAGGAAACACACCATAGGCTAATAGTATAAATTAGAT------AC
TACTGCTCGCACCACGCAAATC--AGTCATCCACACTCCACAGAGTAGGCAGTACATCAAATTAATCCGTCAATGATAAT
C---ATAAACCAGACAGATCAGCCAGGAATACCAACACGGGAGGCGCAATTCGTCGACAGATCAGCCAGGAATACCAACA
CGGGAGGCGCACTTCGTCGACAGATCAACGCAACCACCACATCCTAGGCAGAAACTAATGGGAACGACGCAGTAAA-TTC
AGAGAAGCGGTCAGAACAGGGGGTCAGTGGAG--GGGTAGGGTTTTCTCACCCTGTAGCCGTTGAGTTCGGTCTCGAGCT
TCTCCTTGCGCTGCTCGGCGCGGCGGTTGACGGAGTCGACCCAGGCCTGGTCGTGGCGGTAGCGCGGGCCGAGGCGGCCG
TTGATCTTGAGGACGGCGTCGAGGTAGAGCACGGTGTCCTCGCGCGCCCTGGCCTCGTCGTGCGCCATCCGCAGCGCCTC
GAGCTGGATCGCCTCCACCCCGCACCGCTCCGCGATGAAGAGGAGCCGCGCCACGCGGGTCCGGCCCGAGTACTGCGCCG
CGTACGCCTCCACGTCGAGCTGGTCGGCGGAGACCGGC---GCCGCGGAGGGCTGACCCTCGCCGCCCAGCCCGTTCGTC
ACCGCCGCGGCCGCGGCCGCCGAGACCTCGCAGTCCACGTCCATGCTGC---CGGGGATCGGCGGTGGGGTTCGCCGCAA
AACCCTAGAGAGAGAGGGGGGAGGCGGAAGCTTCCGGAGAGGAGAGATGCAGAGGAGGGGAAAAGACGGAGGGCCTGGGT
TGGAAATAGCACGGGTGGTGCGGGCAGATATGTAAAGTTACGTTGGGCCGGGCATGGGTTTTGTTCTCAACTTGGGCTGG
AATGAACGCCCCTTTCTGGGTCATGTGCTTTGGCCCAATGATTCGTATGGGCTAACAGGCCGAAATACCCTCTTTATATG
TATGTTATGGTG----------GGCTGGTGGCGTGCTGTG---TTCACTTTTTAGGTCCAAAGAAGATTCCGACGAGCGA
GGAGGTCCAGCACTCGAGCGGCGGCG---------GCGGCGACGGCGGAGATGAGGGCGGTGAGCGGCGAGGTGGTCTCG
TCGAAGCCGGTGGGCTTACACAAGGCCGCCCGCGTGTTCAGACGCTTCGCGGCCAGAGAGGCGTCAAGGCTGCCCGCCGG
GGCGGGCGTGCTGGTCCTCTGCGCGGCCGAGGCCGCCGCCGAGCTCCACGCCTTCCGCTGCGCCCGCGTGGGCCCCGATG
GCGAGGCGGAGGTGGATGCGGCACCAAGCGGAGAGGAGCGGCGCAAGAAGAGGAGGAAGACTGGGCGCGAAGGTGTGTCA
CTAGAGTAGGCTCTCTTTTTTGGGGGGTTTAAATCCATGTGTTACTGTGGTACTGGTAGCTTGCCTGTTGTTCTTCATGC
TGTTAAATCCATTTGTTACTGTGGTAGCGACTAGTAATAATATATCTGGTGTTGTTCACGATGTATCATTTCATCATTTG
GGACGAGCTGTGCTGTGTCTTGTGTGTGATGTATGTATCCTGCTGCCGGGGCTACATTTTA-------------------
-----------------------TTTCAGTGCAATCGGCTGAAAACTTTCACCGCCACTCCAAGAGAGACAGAGAAGACT
GCAGCACCACACACAATGCACCTGAAGGAAAGACGTCTGATGAGCTTGTGTGTTGTGCTCTTCAGTCCATTACTGCATCC
CCTGTTGTCCTTGAACTGTTTTTTT---AAGAGAAACTTGGAACTGTT--TTAGTTGGACGTTGAGCATTTTAGTTTTGC
TTTTTAACCACAACCGAACTCTGTAGTA----------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------AGGTGCCATTGTCTCTTGTCTGTCGGTGGAGCCTCCCTGATTTTCCAAAACGAACAAAAT
TGTCGCTGTTAATTTGGTTCTGAAGTCTGAACTCGTGTGCGTTGGAATTTCAGTGTCTGATTTCTCTCTCGGGGCCTTGA
GAAAGAGACGGATACTTGTGTTGTTTTAGCACCTTTCAGCTC-AGCTAGAACGTTACTCAAGCTGCT-----GGATCCCA
TTGGCTCAGACATTGGTGAGAGTGAGTACACAAGTTATTGCCGACTCGCCGGCACCTCTGCTTCACCTGGCCGTGGCCGG
CAAGTAAATCCC---
>chr4B_1
ATGCTCATGCAAGGAACACTAGGCTTGCACATAGTAAGGGAACACAGCATAGGCTAATATTATAAATTAGAG------AC
TACTACTCGCACCACGCAAATCAGAGTCATCCACACTCCACAGAGTAGGCATTACATCAAACCAAGCCGTCTATGATAAT
GATGATTAACCAGACAGATCAGCAAGGAATACCAACACGGTAGGC-----------------------------------
-------C-CAATTCCTCGACGGATCAACGCAACCACCACATCCTAGGCAGAAACTAATGGGAACGATGCAGTAAA-TTC
AGAGACGCGGTCAGAACAGGGGGTCAATGAAG--GGGCAGGGTTTTCTCACCCTGTAGCCGTTGAGTTCGGTCTCGAGCT
TCTCCTTGCGCTGCTCGGCGCGGCGGTTGACGGAGTCGACCCAGGCCTGGTCGTGGCGGTAGCGCGGGCCGAGGCGGCCG
TTGATCTTGAGGACGGCGTCGAGGTAGAGCACGGTGTCCTCGCGCGCCCTGGCCTCGTCGTGCGCCATCCGCAGCGCCTC
GAGCTGGATCGCCTCCACCCCGCACCGCTCCGCGATGAAGAGGAGCCGCGCCACGCGGGTCCGGCCCGAGTACTGCGCCG
CGTACGCCTCCACGTCGAGCTGGTCGGCGGAGACCGGCGGCGCCGCGGCGGCCTGCTCCCCGCCGCCCAGCCCGTTCGTC
ACCGCCGCGGCCGCCGCCGCCGAGACCTCGCAGTCCACGTCCATGCTGCTGCCGGGGATCGGCGCTGGGGTTCGCCGCAA
AACCCTAGAGAGAGACGGGGGAGGCGGAAGCTTCGGGAGAGGCGAGATGCCGAGGAGGGGAAAAGACGGAGGGCCTGGGT
TGGAAATAGCACGGGTGGTGCGGGCAGATATGTAAAGTTACGTTGGGCCGGGTA--------------------------
----------------TGGGTCACGTGCGTTGGCCCAATAATTCTTATGGGCTAACAGGCCGAAATAACCTCTTATAC--
---------AATATGGTGGGCTGGCTGGTGGCGTGCTGTGCTCTACACTTTTTAGGTCCAAGGT----------------
------------CCCGGCGAGCGAGGAGGTCTCGAGCGGCGGCGGCGGAGATGAGGGCGGTGAGCGGCGCGGTGGTCTCG
TCGAAGCCGGTGGGCTTACGCAAGGCCGCGCGCGTGTTCAGCCGCTTCGCGGCCAGAGACGCGTCGGCGCTGCCCGCCGG
CGCGGGCGCGCTGGTCCTCTGCGCGGCCGAGGCCGCCGCCGAGCTCCACGCCTTCCGCTGCGCCCGCGTGGGTCCCGACG
GCGAGGCTGAGGCGGAGGTGGCGCCGGGTGGCCAGGAGCGGCGCAAGAAGAGGAGGAAGACGGGGCGCGAAGGTGTGTCA
CTAGAGTAGGCTCTTTT--AAAAAA-----AAATCCATGTGTTACTGTGGTATCGATTAGT---CTGTTGTTCTTGATGC
TGTTAAATCCATTTGTTACTGTGGTAGCGACTAGTAATAATTTGTCTGCTGTTCTTCACCGTGT--------ATCATTTG
GGACGAGCTGCGTTGTA------------------TATCCTGCTGCTGGGGCTACATTTCACTCCCTCCGTCTCATAATA
TAAGAACGTTTTTCACGCTAGTGTTTCAGTGCAATCGCTGAACT------------------------------------
---------------------------GAAAAGACGTC--TGAGCTTGTGTGCTCTGCTCTTCAGCCCATGACTGAATCC
CCTGCTGCCCTTGAACTGTTTTTTTTATAAGAGAAACTTGAACTGTTTTATTAGTTGGATGTTTAGCTTTTCAGTTTTCC
TTTTGAGCCACAACCCAACTCCGTAGTA----------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------AGGTTCCGTTGTC---TGTCTGTCAGTGGAGCCTCGCTGATTTTCCAAAAGGAACAAAAC
TGTCGCTGTTGATTTGGTTCTGAGGTCTGAACTCGTGTGCGTTGGAACTTCAGCGTCTGATTTCTCTTTCG---------
------GACGGATACTTGTGTTGTTTTAGCACCTTTCAGCTTTAGCTAGAACATTACTCCAGCTGCTGGATCGGATCCCA
TTGGCTCAGACATCAC------------------TTATTGCCGACTCGCCGGCACCTCTGCTTCACCTGGCCATGACCGG
CAAGAAGATCCCAAC
>SNPs
----S-----------------S----SS---------S--------S--SS-S---S--------------SSSSSS--
-----------------------------------------------------------------------S--S-----
--------------------------------------------------------------------------------
-----------------S----------S-------------------SS-----------------S--------S---
------------------S-----------S-SS--------------S-------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
-----------------------------------------------------------------------------SS-
----------------------------------------------S--------------------S---------SSS
SSSSS-SSS---------------------------------------S-------------------------------
---------------------------------------------------------------S----------------
--------------------------------------------------------------------------------
------------------------------------------------------------------S----S--------
-----------S---------S--S---------S-S-----------------------------------------S-
-----------------SS------------------------------S--S---S-----------------------
-----------------------------------------------------S--------------------------
----------------------S---------------------------SS----------------------------
-------------------------------------S--------------S-----SSSSSS----------------
------------------------SS----------------------------------------------S-S-----
SS------------------S---S-----S-SS--SS-S-----S----------------------------------
-------------------------S--SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSS------------------------------------S-----------------------
----------------------------------------------------S-S--S--SSSSS---------------
----------------------------S-----------S-S---------------------------------S---
---------------------------------S----------------S---------------------------S-
---------------
>forward_369
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
-----------------------------GGGGTGGGTAGGGTTTTCTG-------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
---------------
>reverse_1953
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------TGTTGTTGGTTCTGTCCGCT----------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
---------------
