Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Ga03g01499.F1
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1775
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Found at i:392 original size:78 final size:78
Alignment explanation
Indices: 303--565 Score: 242
Period size: 77 Copynumber: 3.4 Consensus size: 78
293 AACCCCAAAA
* * * *
303 CCCCAAATTCTTTTCCCCAAATCAATTCCCCCTCTTCTCAAAAT-CAAAGTTTTTTTTTCCCAAA
1 CCCCAATTTCTTTTCCCCAAATCAATTCCCCCTCTCCCCAAAATCCAAAG--TTTCTTTCCCAAA
367 CCCCTTTCT-TTTTT
64 CCCCTTTCTGTTTTT
* * *
381 CCCCAATTTC-TTTCCCCAAATCAATTCTCCCTCTCCCCAAAATCCCTAAGTTTCTTTCCCAGAC
1 CCCCAATTTCTTTTCCCCAAATCAATTCCCCCTCTCCCCAAAAT-CCAAAGTTTCTTTCCCAAAC
445 CCCTTTCTGTTTTT
65 CCCTTTCTGTTTTT
* * ***
459 -CCCAATTT-TTTT-CCCAAATCAATT-CCCCT-ACCCCAAAATCCCTAA-TTT-TTTTAGAAAT
1 CCCCAATTTCTTTTCCCCAAATCAATTCCCCCTCTCCCCAAAAT-CCAAAGTTTCTTTCCCAAA-
* *
517 CCCGTTT-TTTTTTT
64 CCCCTTTCTGTTTTT
** *
531 CCTGAATTTCTTTTCCCCAAATCAGTTCTCCCCTC
1 CCCCAATTTCTTTTCCCCAAATCAATTC-CCCCTC
566 CCCGATATAT
Statistics
Matches: 156, Mismatches: 18, Indels: 22
0.80 0.09 0.11
Matches are distributed among these distances:
72 11 0.07
73 15 0.10
74 19 0.12
75 15 0.10
76 12 0.08
77 66 0.42
78 14 0.09
79 4 0.03
ACGTcount: A:0.22, C:0.35, G:0.03, T:0.40
Consensus pattern (78 bp):
CCCCAATTTCTTTTCCCCAAATCAATTCCCCCTCTCCCCAAAATCCAAAGTTTCTTTCCCAAACC
CCTTTCTGTTTTT
Done.