>input_sequence_82255
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
------------------------------------------------------------------ATGCCCTGCGACGA
CAAGTGCGGCTGCGCCATGCCGTGCCCGGGCGGCGCCGCCTGCAGGCACGGTGGCCTCGTCCTCTCCTCCCCAGTTCTTA
CTCGATCCAGCG----------TCGCGACGTGGTGTTCCTTTTGCTAAAATCTGACATATGTATGTGTGCGTGTCTGCTT
GGGCATGGCAGGTGCGCCGGGAAGAAGCAGAGCAGCGGCG---GCGGGGCGGTGCCGGTGAACCCCGCGGCCGTGGCGCA
CACCACCTGCACCTGCGGCGAGCACTGCTCCTGCAGGCCGTGCCCCTGCGGCCGGCTCGGCTCCGGCGACGGCGCCGGCA
GGGCCGACTGCACCTGCGGCCCCACCTGCACGTGCGTCGTCTGCACCGCCTGA---------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------
>chr4D_1_TraesCS4D01G321700
TCACTTTTTGCATTGTAGGAGGTCGAAGGTAGGGACGGCAAGGCCAAGCCGTGTACGAGTGGGAGCCGGCGGGAGCGAGT
CCGAAACTTAACCGAGGGGGCGGCCAACACGACGGTGGGGGGAGGTCGAGGGGAGGGCGGTTAGACCTGGGTAGGCCACG
GGGAAGGAGGAGGAATCGTCGTGGGAGAGGAGGAAGAAGGTGTCGGGGGAACAAGATGGACATGTGACGGCATGCTCCTA
ACCGTTGGATATTGATCTGATGGCCAAAAATATAAGTGAAGAAGTTTTTGTGGTATAGATAGCCTCTAATTTATTTATCA
TCATTTGCCCGTAGCAAGCATGGACTGGTTCAGACAGTAGCACTGAACTTTACGCTACTCATTATGAGATGGATCCACAT
TCCATAGCGATCAGTGCATTTGTCTCTGAAGCCTGCAAGGTTTTGGTACTCGGACGGTGCGTCGCGGCGTCAGTTACATG
CGCCGTACGTACGTACGTTCGGCACGGTGCGAGTGTGAGGGTGCGC--------------------ATGGACCTGACGGG
AACTGTGTTTCCGTTCCGACCTGCGCGTGCTATCGGGACTGCTACGATAACTGTGCCATTGGCAGGTGGCATGGCGTGCG
CCCAGAGCGCGCGCTGCGGCGCCACCGCTGCACCGAGAGTGGCCGAGCGGGCACCCACTTGGCGTCCATGCATGCACCCA
CGCCCGTCTT-CATGCCAAGCTTAAACGGCCATCGACCAGACCACTGCTCTGCCGCTCTGCAAGGTGACTGTTGTCTGCT
AGAGATCCTCCTGATAATCAAGCCAGGCCTCGTCCCCAGGGGCGAAGCTACGTATAGCTACCCGGTGTCACTGGCACCGG
GTGCAATTTGCATGCACTTATTGGCTTAGTGTGTAGGCCATTCAATTGTTTGATATGTAGGCATGTGTTCTTCTATATGG
ACACCGGGTAATTTTAAGTCTGGATCCGCCCCTGCTCGTCCCTCCAGCACAG-----CAGCGAGCCATGCCCTGCGACGA
CAAGTGCGGCTGCGCCATGCCGTGCCCGGGCGGCGCCGCCTGCAGGCACGGTGGCCTCGTCCTCTCCTCCCCAGTTCTTA
CTCGATCCAGCG----------TCGCGACGTGGTGTTCCTTTTGCTAAAATCTGACATATGTATGTGTGCGTGTCTGCTT
GGGCATGGCAGGTGCGCCGGGAAGAAGCAGAGCAGCGGCG---GCGGGGCGGTGCCGGTGAACCCCGCGGCCGTGGCGCA
CACCACCTGCACCTGCGGCGAGCACTGCTCCTGCAGGCCGTGCCCCTGCGGCCGGCTCGGCTCCGGCGACGGCGCCGGCA
GGGCCGACTGCACCTGCGGCCCCACCTGCACGTGCGTCGTCTGCACCGCCTGATCAATCCATCCATCGGAC--TCGTAGC
GCTCCCTGTGTCTGTTGCTTCAGATGTACTGTACCACCACTGTCAC---------CTACTCATGGCATGAATAAGAATCG
TTCATCTTCAGTCTCCCTGTGCATTTTCTCTGGACAGATATCTTCGGTATCCTTCCACGCACAATCACGCACACACAAGC
TTAGTTACATCT----CTCACTCACTCACTCACTCACCAACATCTCATCACAAATCCGTCAAAAGCACTCCCAAAAAACA
CAAGAAGAACAGAGA-AAACACGCCCCAAAATGTACTGTACAAGTATGCATGCTCTGAACACCAAGCTCGATCACACAGT
CAGTCAGTCAGTCAGTCCCCTACGTTGAGCAGCACGTCCCACAGCGTCTCGTCGACGAGCTCCGACAGGATCTCCGCCTC
CATCTCCTCGGCGATCCCGTCGACGTCGTCGCGGAACACGCCGCTCCAGGGGGACACCCCCATGTCGCGGCCGATGAGCC
CGTCCACCGAGTTCACGTCGTCGTCCACGCTCGGCGGCTCCAGCCACGTCTGCACGGATCTCCACAGCCCGTCGAGCAGC
CTCCTGTCAGCAGACGCTCTTCTCGGCGGCGCCGCGTACCACTTGCTGAACACGCACAGTGTCGTCGAGCCCCGGGCGGC
TCCGGGCAGCGCCTCGTTTATCAGGTCGAAGAGGAGGCGGTGGTCCACGTCATGGACGGAAG---CGGCTTCCGGAGGTG
GTGTCGAGGAGGTGACTTGCTCGAACGCCCACTTGGGGATCGGCTTGATCGGTTGGCAGGTTAATGAGAGGTGATCGCCG
GAGTTCTGGCCGTACATGCCGGCGACGACGAGGACGGTTCTGATGAAAGCTTTTGTCGGGTGATCCATCTCGGCCGTGTC
GTCGTCATCATCGTCCTGGACTGCTGGACTTGCTTGTGGGATTTCTTCAGCTTGATCTTGCTCCAGACATGAATTGCCTG
GTTCTGAGACAATATTTCGTCAGAACCATAAC
>chr4B_1
TCACTTTTTGCATTGCAGGAGGTCGAAGGTAGGGACGGCAAGGCCGAGCCATGTACGAGTGGGAGCCG--GGGAGCGAGT
CCGAAACTTAACCG-GGGGGCGGCCAACACGACGGTGGGGGGAGGTTGAGCGGAGAGCGGTTAAACCTAGGTAGGCCACG
GGGAAGGAGGAGGAATCGTCGCAGGAGAGGAGCAAGAAGGTGTGGGAGTAACAAGATGAACATGTGATGCCGTGCTCCTA
GCCGTTGGATATTGATCTGATGGCCAAAAGTATAAGGGACGGGCACGAGAA-----------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
----------------GTTCGGCACGGTGCGAGTGTGAGGGTGCGCCGTGCGGCGGACCTGCGCGCATGGACCTGACGGG
AAGTGCGTTTTCGTTCCGACCTGCGCGTGCTATCGGGACTGCTACTATAGCTGTGCCATTGGCAGGTGGCATGGCGTGCG
CCCAGAGCGCGCGCCCCGGCGCCACCGCTGCACCGAGAGTGGCCGAGCGGGCACCCACTTGGCGTCCATGCATGCACCCA
CGCCCGTCTTTCATGCCAAGCTTAAACGGCCATCGACCACCTGCT---TCTGCCGCTCTGCAAGGTGACTGTTGTCTGCT
AGAGATCCTCCTGATAACCGAGCCAGGCCTCGTCCC--------------------------------------------
--------------------------------------------------------------------------------
------------------------------------------TCCAGCACAGCTTCCCAGCGAGCCATGCCCTGCGACGA
CAAGTGCGGCTGCGCCATGCCGTGCCCGGGCGGCGCCGCTTGCGGGCACGGTGGCCAGGCCTCGTCCTCCCCAGTTCTTA
CTCGATCCAGCG----------TCGCTACGTGATGTTCCTCCTGCTG-AATCTGACGTGTGTACATGCGCGTCTCTCTTT
G-----GGCAGGTGTGCCGGGAAGAAGCAGAGCAGCGGCG---GCGGGGCGGTGCCGGTGAACCCCGCGGCCGTGGCGCA
CACCACCTGCACCTGCGGCGAGCACTGCTCCTGCAGGCCGTGCTCCTGCGGCCGGCTCGGCTCCGGCGACGGCGACGGCA
GGGCCGACTGCACCTGCGGCCCCACCTGCACCTGCGTCGTCTGCACCGCCTGATCAACCCATCCGACTAGTCGTCGTAGC
GTACCGTGTGTTTGTTGCTTCAGATGGACTGTACCACTCTGTCAGC-----CAGTGTACTCATGGCATGAATAAGAATCC
TTCATCTTCAGTCTCCCTGTGCATTTTCTCTGGACAGATATCTTCGGTATCCTTCCACGCACAAGCGCACACACACAAGC
TTAGTTACATCT----CTCACTCGTTCACTCACTCACCAACATCTCATCACAAATCCGGCAAAAGCACTCCGAAAGAACA
CAAGAAGAACAGAGAAAAACACACCCCAAAATGTACTGTACAAGTATGCATGCTCTGAACACCAAGCTCAATCACACAGT
CAGTCAGTCAGTCAGTCCCCTACGTTGAGCAGCACGTCCCACAGCGTCTCGTCGACCAGCTCCGACAGGATCTCCGCCTC
CATCTCCTCGGCGATCCCGTCGACGTCGTCGCGGAACACGCCGCTCCAGGGGGACACGCCCATGTCGCGGCCGATGAGCC
CGTCCACCGAGTTGGCGTCGCGGTCGACGCCTGGCGGTTCCAGCCACGTCTGAACGGATCTCCACAGCCCGTCGAGCAGC
CTCCTGTCCGCGGACGCTCTTCTCGGCGGCGCCGCGTACCACTTGCTGAACACGCACAGTGTCGTCGAGCCCCGGGCGGC
TCCGGGCAGCGCCTCGTTTATCAGGTCGAAGAGGAGGCGGTGGTCGACGTCATGGCCGTCTGAAACGGCTTCCGGAGGTG
GTGTCGAGGAGGTGACTTGCTCGAACGCCCACTTGGGGATCGGCTTGATCGGTTGGCAGGTTAACGAGAGGTGATCGCCG
GAGTTCTGGCCGTGCATGCCGGCAACGACGAGGACGGCTCTGATGAAAGCTTTTGTCGGGTGATCCACCTCGGCCGTGTC
GTCGTCATCATCGTCCTGGACTGCTGAACTTGCTTGTGGGATTTCTTCAGCTTGATCTTGCTCCATCCATGAAATTCCTG
GTTCTGAGACAACATTTCGTCAGAAACATAAC
>chr5A_999
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
----------------------------------------------------------------CCATGCCCTGCGACGA
CAAGTGCGGCTGCGCCGTGCCGTGCCCGGGCGGCGCCGCTTGCAGGCAGGCACCCACCGTGACTCCAATCTCTCTGCAGC
CAGCAGTAGCTTGCTTACTTACTCGAGGGGTCGCGTACCTTTTGCTA-GATCTGACGTGTGTCGGTG------------T
G-----GGCAGGTGCGCCGGGAAGAAGCAGAGCAGCGGCGGCGGCGGGGCGGTGCCGGTGAACCCCGCGGCCGTGGCGCA
CACCACCTGCACCTGCGGCGAGCACTGCTCCTGCAGGCCGTGCGCCTGCGGCAGGCTCGGCTCCGGCGACGGCGCCGGCA
GGGCCGACTGCACCTGCGGCCCCACCTGCACCTGCGTCGTCTGCACCGCCTGATCAACCCATCCATCGTAC--TCGTAGC
GTACCGTGTGTCTGTTGCTTCAGATGTACCACCAGTGTTACCTGCTCTGTTCAGTCTACTAATGGCATGAATAAGAATCC
TTCATCTTCAGTCTCCCTGTGCATTTTCTCTGGACAGATATCTTCGGTATCCTTCCACGCACAAGCGCACACACACAAGC
TTAGTTACATCTCCCACTCACTCACTCACTCACTCACCAGCATCTCATCACAAATCCGGCAAAAGCACTCCGAAGAAACA
CAAGAAGAAGAGAGAAAAACACACCCCAAAATGTACTGTACAAGTATGCATGCTCTGAACACCAAGCTCAACCACACAGT
CAGTCAGT----CAGTCCCCTACGTTGAGCAGCACGTCCCACAGCGTCTCGTCGACCAGCTCCGACAGGATCTCCGCCTC
CATCTCCTCGGCTATCCCGTCGACGTCGTCGCGGAACACGCCGCTCCAGGGGGACACGCCCATGTCGCGGCCGATGAGCC
CGTCCACCGAGTAGGCGTCGTCGTCGACGCTCGGCGGCTCCAGCCACGTCTGCACGGATCTCCACAGCCCGTCGAGCAGC
CTCTTGTCCGCCGACGCTCTTCTCGGTGGCGCCGCGTACCACTTGCTGAACACGCACAGTGTCGTCGAGCCGCGGGCGGC
TCCGGGCAGCGCCTCGTTTATCAGGTCGAAGAGGAGGCGGTGGTCGACGTCATGGACGGAAG---CGGCTTCCGGAGGTG
GTGTCGAGCAGATGACTTGCTCGAACGCCCACTTGGGGATCGGCTTGATCGGTTGGCAGGTTAATGAGAGGTGATCGCCG
GAGTTCTGGCCGTACATGCCGGCCACGACGAGGACGGCTCTGATGAAAGCTTTTGTCGGGTGATCCATCTCGGCCGTGTC
GTCGTCGTCATCGTCCTGGACTGCTGAACTTGCTTGTGGGATTTCTTCAGCTTGATCTTGCTCCAGGCATGAATTGCCTG
GTTCTGAGACAACATTTCGTTAGAAACATAAC
>SNPs
---------------S-----------------------------S----S-----------------SS----------
--------------S-------------------------------S---S----S-------S----S-----------
---------------------SS---------S----------S--S-S---------S--------S-S-S--------
S----------------------------S------S--S-SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSS----------------------------------------------------------------
--S--S----S----------------------------------S---S------------------------------
--------------SS----------------------------------------------------------------
---------------------------------------SSSSSSSSS--------------------------------
-----------------S-S----------------SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS--------------------------------------
---------------------------------------S----------------S----SSS----------------
-----------------------------------------------S--------S-S----S---S----S---SS--
-SSSSS--------------------------------------------------------------------------
-------------------------------------------S------------------------------------
-------------------------------S-------------------------S----------S-----------
-SS--S-------------------------------SSSSS-SS----------------------------------S
----------------------------------------------------------------S-S-S-----------
----------------------------------------------------------S------------S--------
----------------------S----------------------------------------------S----------
--------------------------------------------------------S-----------------------
---------------------------------------------------------S----------------------
-------------SS----------S------------------------------------------------------
--------S--S--------------------------------------------------------------------
---------------------------------------------S----------------------------------
--------------------------------------------------------------------------------
-----------------------S-------------S------------------------------------------
--------------------------S---------------------------------------S-------------
------------S------------S------
>forward_458
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------GGTTTTGGTACTCGGACGGT----------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------
>reverse_1443
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--TCCCTGTGTCTGTTGCTTCA----------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------
