Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01012670.1 Corchorus capsularis cultivar CVL-1 contig12691, whole genome shotgun sequence
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: 8455
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Found at i:3115 original size:107 final size:104
Alignment explanation
Indices: 2866--3126 Score: 345
Period size: 107 Copynumber: 2.5 Consensus size: 104
2856 TACAAATTTT
* *
2866 AATTTTAATTTGGGTTAAACTTAGTG-AATTAGTTATGTATTTTATTTCTAAAACCCGATAACAA
1 AATTTTAATTTGGGCTAAACTTAGTGAAATTAGTTTTGTATTTTATTTCTAAAACCCGATAACAA
* *
2930 TATTATTAATTATGGAATTTACCCTTTAAATAATAAAAA
66 TATTATTAATTATGAAATTTACCCTTAAAATAATAAAAA
* * *
2969 AA----AATTTGGGGCTAAACTTAGTGAAATTAGTTTTGTATTTTATTTCTTAAACCCTATGACA
1 AATTTTAATTT-GGGCTAAACTTAGTGAAATTAGTTTTGTATTTTATTTCTAAAACCCGATAACA
* *
3030 ATAAATTATTAATTTTGAAATTTATCCTTAAAATAA-AAATAA
65 AT--ATTATTAATTATGAAATTTACCCTTAAAATAATAAA-AA
*
3072 AATTTTAATTTGGGACTAAACTTAGTGAAATTAGTTTTATATTTTATTTCTAAAA
1 AATTTTAATTTGGG-CTAAACTTAGTGAAATTAGTTTTGTATTTTATTTCTAAAA
3127 TTCTATAATA
Statistics
Matches: 137, Mismatches: 11, Indels: 16
0.84 0.07 0.10
Matches are distributed among these distances:
99 5 0.04
100 14 0.10
101 35 0.26
102 3 0.02
103 34 0.25
106 3 0.02
107 43 0.31
ACGTcount: A:0.39, C:0.08, G:0.10, T:0.43
Consensus pattern (104 bp):
AATTTTAATTTGGGCTAAACTTAGTGAAATTAGTTTTGTATTTTATTTCTAAAACCCGATAACAA
TATTATTAATTATGAAATTTACCCTTAAAATAATAAAAA
Done.