Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01010602.1 Kokia drynarioides strain JFW-HI SEQ_125533, 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: 2050
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.35
Found at i:1189 original size:31 final size:31
Alignment explanation
Indices: 1151--1230 Score: 121
Period size: 31 Copynumber: 2.6 Consensus size: 31
1141 GATGATGATT
1151 ATAATTTTAAAATAATTTTATATTT-AAAAAA
1 ATAATTTT-AAATAATTTTATATTTAAAAAAA
1182 ATAATTTTAAA-AATTTTATATTTAAAAAAAA
1 ATAATTTTAAATAATTTTATATTT-AAAAAAA
1213 ATAATTTT-AATAATTTTA
1 ATAATTTTAAATAATTTTA
1231 AAATCATTTG
Statistics
Matches: 46, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
29 12 0.26
30 5 0.11
31 29 0.63
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (31 bp):
ATAATTTTAAATAATTTTATATTTAAAAAAA
Found at i:1205 original size:15 final size:15
Alignment explanation
Indices: 1164--1209 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
1154 ATTTTAAAAT
1164 AATTTTATATTTAAA
1 AATTTTATATTTAAA
** *
1179 AAAATAAT-TTTAAA
1 AATTTTATATTTAAA
1193 AATTTTATATTTAAA
1 AATTTTATATTTAAA
1208 AA
1 AA
1210 AAAATAATTT
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
14 11 0.46
15 13 0.54
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
AATTTTATATTTAAA
Done.