>input_sequence_72991
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
----------------GGCACCCACGGCACTCTTTCCCGCCGCGCCTCCTGAGAGCACTCCAGAATGACATCGATGATCA
GCACGGACGATGCTGCTGCGACAAGCCATGTCGACGCTCCAGTTCCAGGTAACAGTGTGGATCTTTTGTACCTTCTCTCT
CGCACAATTCTCT----CGTGCGCCCAAAGGATCGACATGATTCTGTCTGGTGCGTGCATGCATGCATGCAGTTACGACG
AGGGATCACGGGGAGGCGGCGGGTGTCGCCGGCAAGGGCGCCGCGTCCGCGGAAGAGCAGGAGCAGGCGGCGGCGAGGCG
CGACGTCTTCCTGCTGGCCGGGATCAGGAAGCTCATCAAGAGCTTCAGGAGCCTGTCCCACATCTTCGAGCTGTACAAGG
ACGAGGAGGAGGAGGACGACGACATCCAGATCGGGTTCCCTACGGACGTGGAGCACGTGGCCCACATCGGGCTGGACGGC
TCCAGCAGCGTCGCCAGCCTCAGGGGGATGGACGGGGCCAGGGAGCTCCTCTCCCTCTCCACCAACATCTCCCTCCAGCA
GTTCGAGTTCGCCATGGCCTCCATCGCCGCGCATGACGACCGCAGCGCCGCCATAGCAGCTAGCCCGTAAT---TATTTA
CAGTACTTAATTAATAACTGGGCCACAA----------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
----
>chr3D_1_TraesCS3D01G420000
TCATGGAGACGACAGATGGAGGACCTGGTTGCCGAAGCGGAATATAAAGGAAGTGGACGACGGTCACCCCGTAGGATAGG
TTTAGGGCCGGGTCGCTTTTTTGTCCTAAATGTTCGAAATGTAATGAAAATGTTCAAAATGTAATGAATTTTGTCCGGTT
TATATGAAAATCTGTTGTATTTGTATGAATTTCGTCCGGTTAGTTGAAACCTGACTTGAAATGTATGCGAGCAGCCTTGG
ATGGTCGCCTCCCGCACCTGTGTCCGTGAACAGATGCCGGAGCAAATTTGCGGGTCGGCGTTGGAAATGCCCTTGGATCA
CTAAAATAGTGATCTAAAAGATATTATACTCCCTCCGTCCGAAAATACTTGTCATCAAAATGGATAAAAAGGGATGTATC
TAGAACTAAAATACGTTTAGATACATCTTCTTTTATCCATTTTGATGACAAGTATTTTCGGACGGAGGGAGTATTTCTTT
ACGAAGAGAGTATATGCATAACATGGGTCTTTTGCGTGCATCCACTCAGCTTGTCCCAGTTGAGCCACAGATGGAGAGA-
GCCAAAAATGATGCAATCTACCGAACGTCTCCTGTCTACTCTACTGAATACATGGGCAGAGTGACAAACCCCAGCAGTGC
AGCAGACTTGTACTAGCATCGTGGCATGGTGCCATCCCAGGACCTCATGTCGCTGACTCACACCAAGCCGTGCACTAAAT
TATTGAGACTAAGAACTGAACAAACTGAATCTAACTGAAACTAAATAAAGACAAAAGTGCAG------------------
-----------TTAACTTGGCGTGAGGTTTGCAGCACCTAACGAGGCCTACCAGCCACTCCGCTCTACCCGGCCTTGAGG
CAGAGGCACTACAACCAACTTGAACTCATACGTGCAACTATCCCACCTTTACATCCACATAAACCACCATAACCACCTCC
ATTCTTTGACTGCCTTCCCTTGCACTCCACACTTCCTCTCTCTATATAACA-AGACCAGAC-------------------
------ACCAAACTGAGGCACCCACGGCACTCTTTCCCGCCGCGCCTCCTGAGAGCACTCCAGAATGACATCGATGATCA
GCACGGACGATGCTGCTGCGACAAGCCATGTCGACGCTCCAGTTCCAGGTAACAGTGTGGATCTTTTGTACCTTCTCTCT
CGCACAATTCTCT----CGTGCGCCCAAAGGATCGACATGATTCTGTCTGGTGCGTGCATGCATGCATGCAGTTACGACG
AGGGATCACGGGGAGGCGGCGGGTGTCGCCGGCAAGGGCGCCGCGTCCGCGGAAGAGCAGGAGCAGGCGGCGGCGAGGCG
CGACGTCTTCCTGCTGGCCGGGATCAGGAAGCTCATCAAGAGCTTCAGGAGCCTGTCCCACATCTTCGAGCTGTACAAGG
ACGAGGAGGAGGAGGACGACGACATCCAGATCGGGTTCCCTACGGACGTGGAGCACGTGGCCCACATCGGGCTGGACGGC
TCCAGCAGCGTCGCCAGCCTCAGGGGGATGGACGGGGCCAGGGAGCTCCTCTCCCTCTCCACCAACATCTCCCTCCAGCA
GTTCGAGTTCGCCATGGCCTCCATCGCCGCGCATGACGACCGCAGCGCCGCCATAGCAGCTAGCCCGTAAT---TATTTA
CAGTACTTAATTAATAACTGGGCCACAACTCGCGCCGCGCACGTACGTTCTACCAGTTCTTCTACGGACCCCCAC----G
GGCGCTGTCTAGCCTACATGCTCTTCCCG-TTTCTGGCCAATGCTGGCAGTCGCTACCTCAAAACAGGGATTGGCAGATG
GTGGTTTACAATGGTTGCCCCGTGGTGTATATAATGTCACCAGTGGATATTTTTGTAATTTCAGACGCCAACTGCTTTGG
TGTGGGACGTGAATGTACATGGTATGTCACGCACGGAGATCTCAACCATTTTTTTATCTGCAAAAAAGCAGCTTCCTTAG
CTTAACCTTG--TTTTTAGCAACAATATTACTTCCTTAATCACGC---AAAAAAATATTACTTCCTTAACAACATA-GTG
GGACTTTTTTAGCTCAGATGGTTAGTCTGACATCAATAACCGAGGGTGGGGTGGAAA---AAGAACTACGCAGCGGCAAT
GGCGGACCAAACATGGTCATGAGGATCGAGACAGCAACAAAAACTGCACACACACACACACACACACACACACACACACA
CACACACACACACACACACACACACGTGAGTTTACCAAATCAAATGGTCTATCAACTGGCGTTTGAAGAAGCAAAACCCA
TTGTCAGGTCAATCAAAATTCGACAAATTTCATACATTTATTGTCAGGGGTTGCAGTAAATTAATCTAATGAAAAA--AG
CACATCAAAAATTACTTAAACCGCTGTAGTTCTTTACCCCTTCCCAAGAATTGAAAATCTCATCGATGGCTCTCGTTACT
ATTGTCAATCTCCTTTCCATTATCGGGTCCTAGTGACGGAAACTTTGAGGGACATTAGACTATTGTAGCACAACGTAGCA
TAGCGTACCATCATAGCACTTGTTTTGAATTTAAGTCATGATACCATGCTCTGAATAATAATGATTTCAAGGTGCTGCTG
GGAGGCTGAGTATTTTGGCTAAGTTATAAAAGAGATATCATTGCGTGCATTTGTTTCTTTGCCTATGCCTCCTTCTCCCA
TGTA
>chr3A_510
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
-----------------------------TTTTGCGGGCATCCACTCAGCTTATCCCAGTTGAGCCACGAATGGAGAGAG
GCCAAAAACGATGCAATCTACCGAGCGTCTCCTG-----TCTACTGAATACATGGGCAGAGTGACAA-CCCCAGCAGTGC
AGCAAACCTGTACTTA-------GCATGGTGGCATCCCAGGACCTTATGTCGCTGACTCACGCCAAGCCCTGCACTAAAT
TATTCAGACTAAGAACTGAACAAACTGAATCTAACTGAAACTAAATAAAGACAAAAGTGCAG------------------
-----------TTAACTTGGCGTGAGGTTTGCAGCACCTAACGAGGCCTACCAGCCACTCCGCTCTACCCGGTCTCGAGG
CAGAGGCACTACAACCAACTTGAACTCATACGTGCAACTACCCCACCTTTACATCCACATAAACCACCATAACCACCTCC
ATTCTTTGACTGCCTTCCCTTGCACTCCACACATCCTCTCTCTATATAACAAAGACCAGAC-------------------
------ACCAAACTGAGGCACCCACGGCACACTTTCCCGCCTCGCCTCCTGAGAGCACTCCAGAATGACATCGATGATCA
GCACGGACCATGGTGCTGCGACGAGCCATGTCGACGCTCCACTCCCAGGTA-GAGTGTGGATCTTTTGTACCTTCTCTCT
CGCACAATTCTCTCGATCGTGCGCCCAAAGGATCGACATGATTCTGTCTGGTGCGCGCGTGCGTGCATGCAGTTACGACG
AGGGATCACGGGGAGGCGGCGGATGTCGCCGGCAAGGGCGCCGCGTCCGCGGAAGAACAGGAGCAGGCGGCGGCGAGGCG
CGACGTCTTCCTGCTGGCCGGGATCAGGAAGCTCATCAAGAGCTTCAGGAGCCTGTCCCACATCTTCGAGATGTACAAGG
ACGAAGAGGAGGAGGACGACGACATCCAGATCGGGTTCCCGACGGACGTGGAGCACGTGGCCCACATCGGGCTGGACGGC
TCCAGCAGCGTCGCCAGCCTCAGGGGGATGGACGGGGCCAGGGAGCTGCTCTCCCTCTCCACCAACATCTCCCTTCAGCA
GTTCGAGTTCGCCATGGCATCCATCGCCGCGCATGACGACCGCAGCGCCGCCATAGCAGCTAGCCCGTAATAATTATTTA
CAGTGCTTAATTAATAACTGGGCCACAACTCGCGCCGCGCACGTACGTTCTACTAGTTCTTCTAT-----CCCAC----T
GGCGCTGTGTAGCCTACATGCTCTTCCCCGTTCCAGGCCAATGCTGGCAGCCACTACGCCAAAACAGCGATTGGCAGA--
----------------------TGGTGTATATAATGTCACCTATGGAAATTTTTGTAATTTGAGACGCCAACTGCTTTGG
TGTGGGACGTGAATGTACATGGTGTGTCACGCACGGAGATCTCGACCATTTTTTTATCTGCAAAAAAACAGCTTCCTTAG
ATTAACCTTTTTTTTTTGGCAACAATTTTACTTACTTAATGGTCGCAAAAATATATATTACCTTTTTAACATCATATGTG
GGACTTTTTTAGCTCAGATGGTTAGCCTGACATCAATAACCGAGGGTGGGGTGTTAAATTAAGAACTACTCAGTGGCAAT
GGCGGACCAAACATGGTCATGAGGATCGAGACAGCAACAAAAACTGCACACACACACACA--------------------
----------CACACACACACACACATGAGTTTGCCAAATCAAATGGTCTATCAAGTGGCGTTTGAAGAAGCAAAACCCA
TTGTCAGGTCAATCAAAATTCGACAAATTTCATACATTTATTGTCAGGCGTTGCAGTAAATTAATCTAATGAAAAAAAAG
CACATCAAAAATTACTTAAACCGCTGTAGTTCTTTACCTCTTCCCAAGAATTGAAAATCTCATCGATGTCTCTCGTTACT
GTTGTCAATCTCCTTTCCATTATCGGGCCCTAGTGACGGAAACTTTGAGGGACATTAGACTATTGTAGCACAACGTAGCA
TAGCGTACCATCATAGCACTTGTTTTGAATTTAAGTCATGATACCATGCTCTGAATAATAATGATCTCAAGGTGCTGCTG
GGAGGCTGAGTATTTTGGCTAAGTTATAAAAGAGATATCATTGCGTGCATTTGTTTCTTTGCCTATCCCTCCTTCTCCCA
TGT-
>chr3B_601
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
-----------------------------------------TACTGAATACATGGGCAGAGTGACAA-CCCCAGCAGTGC
AGCAGACTTGTAC-TA-------GCATCGTGCCATCCCTGGACCTCATGTCGCGGACTCACACCAAGCCCTGCAATAAAT
TATTCAGACTAAGAACTGAACAAACTGAAGGTAACTGAAACTAAATAAAGACAAAAGTGCAGTTAACTTTTTTTTGAATA
AAAAAGTGCAGTTAACTTGGCGTGAGGTTTGCAGCACCTAACGAGGCCTACCGGCCACTCCGCTCTACCCGGCCTTGAGG
CAGAGGCACTACAACCAACTTGAACTCATACGTGCAACTACCCCACCTTTACATCCACATAAACCACCATAACCACCTCC
ATTCTTTGACTGCCTTCCCTTGCACTCCACACTTCCTCTCTCTCCTCCTCATCATCCATCTCTCTATATACTCACCGCAC
CGAGCGACCAAACCGAGCCACTCACCGCACTCTTTCCCGCCTCGCCTCCCGAGACCACTCCAGAATGACATCGATGATCA
GCACGGACGACGCTGCTGCGACGAGCCATGTCGACGCTCCAGTTCAAGGTAAGAGCGTGGATTTTCTGCACCT----TCT
CGCACCCTTCTCT----TGTGCACCCAACGGATCGACGTAATTCTGTCTGGTGCGCGCGTGCGTGCATGCAGTTGCGACG
AGAGATCACGGGGAGGCGGCGGATGTCGACGGCAAGGGCGCCGCGTCCGCGGAAGAACAGGAGCAGGCGGCGGCGAGGCG
CGACGTCTTCCTGCTGGCCGGGATCAGGAAGCTCATCAAGAGCTTCAGGAGCCTGTCCCACATCTTCGAGCTGTACAAGG
ACGAGGAGGACGAGGACGACGACATCCAGATCGGGTTCCCTACGGACGTGGAGCACGTGGCCCACATCGGGCTGGACGGC
TCCAGCAGCGTCGCCAGCCTCAGGGGGATGGACGGCGCCAGGGAGCTGCTCTCCCTCTCCACCAACATCTCCCTCCAGCA
GTTCGAGTTCGCCATGGCCTCCATCGCCGCGCATGACGACCGCAGCGCCGCCATAGCAGCTAGCCCGTAAT---TATTTA
CAGTGCTTAATTAATAACTGGGCCACAACTCGCGCCGTGGACGTACG----ACTAGTTCTTCTGC-----CCCTGTACTT
GGCGCTGTCTAGCCTACATGCTATTCCCA-TTCCTGGCCAATGCTGGCAGCCTCTACGCCAAAACAGGGATTGGCAGA--
----------------------TGGTGTATATAATGTCACCTATGGATATTTTTGTAATTTGAGACACCAACTGCTTTGG
TATGGAACGTGAATGTACGTGGTATGTCACGTACGGAGATCTCAACTATTT-----------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
----
>SNPs
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSS-------S---------------S---------------SS----------
--------S---------------S---------SSSSS----------------------------S------------
--------------SSSSSSSSS----------------------------------------------S----------
----S---------------------------------------------------------------------------
--------------------------------------------------------------------------------
----------------------------------------S---------------------------------------
--------------------------------------------------------------------------------
-----------------------------------------S--------------------------------------
----------------------S-----------------------------S---------------------------
-------------------------------------------------------S--S---S-----------------
----------------------S---------------------------------S-----------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
-----------------------------------------------S--------------------------------
--------------------------------------------------------------------------------
----S------------------------------------------------S-----------SSSSS---------S
----------------------------S---S-----------------S-S----SS-------------------SS
SSSSSSSSSSSSSSSSSSSSSS-------------------SS------------------S------------------
-------------------------------------------------------------------S------------
S--------S-------S--------S------S------SSSSS------S-S-------S-SS------S--------
-------------------------S---------------------------SS--------------S---S------
------------------------------------------------------------SSSSSSSSSSSSSSSSSSSS
SSSSSSSSSS---------------S-------S---------------------S------------------------
------------------------------------------------S-------------------------------
--------------------------------------S-----------------------------S-----------
S--------------------------S----------------------------------------------------
-----------------------------------------------------------------S--------------
------------------------------------------------------------------S-------------
---S
>forward_65
---------------------------------------------AAAGGAAGTGGACGACGGTC---------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
----
>reverse_2135
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
------------------------------------------------------AAAAAGAACTACGCAGCGGC------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
--------------------------------------------------------------------------------
----
