Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Ga04g01862.F2
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: 1941
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Found at i:976 original size:24 final size:26
Alignment explanation
Indices: 943--994 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
933 TGGGGTGTAT
943 CTTCTCCTC-T-TATGGTAATTGAAG
1 CTTCTCCTCTTATATGGTAATTGAAG
*
967 CTTCTTCTCTTATATGGTAATTGAAG
1 CTTCTCCTCTTATATGGTAATTGAAG
993 CT
1 CT
995 AAATTTATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 8 0.32
25 1 0.04
26 16 0.64
ACGTcount: A:0.21, C:0.19, G:0.15, T:0.44
Consensus pattern (26 bp):
CTTCTCCTCTTATATGGTAATTGAAG
Found at i:1854 original size:50 final size:49
Alignment explanation
Indices: 1788--1941 Score: 213
Period size: 50 Copynumber: 3.1 Consensus size: 49
1778 TTATAAAATA
1788 TATTCTTATGAACTTTTATAATTTGGTTATTCACCATGTACAAGGAATCT
1 TATTCTTATG-ACTTTTATAATTTGGTTATTCACCATGTACAAGGAATCT
* * *
1838 TATTTTTATGATCTTTTATAATTTGGTTATTTATCATGTACAA-GAATCT
1 TATTCTTATGA-CTTTTATAATTTGGTTATTCACCATGTACAAGGAATCT
* *
1887 TCATTCTTATGAATTTT-TAATTTGGTTATTCACCATGTACAAGGATTCT
1 T-ATTCTTATGACTTTTATAATTTGGTTATTCACCATGTACAAGGAATCT
*
1936 CATTCT
1 TATTCT
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
48 28 0.30
49 17 0.18
50 47 0.51
ACGTcount: A:0.28, C:0.13, G:0.11, T:0.48
Consensus pattern (49 bp):
TATTCTTATGACTTTTATAATTTGGTTATTCACCATGTACAAGGAATCT
Done.