Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Ga11g01941.F4
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: 3204
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Found at i:1517 original size:16 final size:16
Alignment explanation
Indices: 1466--1517 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
1456 CGGGTTTAGA
1466 TTTATACTTCTGATGT
1 TTTATACTTCTGATGT
* * * *
1482 TTTAAAC-TGTGTTAGA
1 TTTATACTTCTGAT-GT
1498 TTTATACTTCTGATGT
1 TTTATACTTCTGATGT
1514 TTTA
1 TTTA
1518 ACATGCCGTT
Statistics
Matches: 26, Mismatches: 8, Indels: 4
0.68 0.21 0.11
Matches are distributed among these distances:
15 4 0.15
16 18 0.69
17 4 0.15
ACGTcount: A:0.23, C:0.10, G:0.13, T:0.54
Consensus pattern (16 bp):
TTTATACTTCTGATGT
Found at i:1655 original size:204 final size:203
Alignment explanation
Indices: 1305--1711 Score: 787
Period size: 204 Copynumber: 2.0 Consensus size: 203
1295 CACTTGCTTA
1305 GATGTTTTAACATGCCGTTGCTGCTGACATTATAGGGCAATATATCATTTACCATATCTATGAAC
1 GATGTTTTAACATGCCGTTGCTGCTGACATTATAGGGCAATATATCATTTACCATATCTATGAAC
*
1370 TGATTCTTTACCCGCAAAATTTTAATGTGAGGTTGTGTTATGTACCATATATCTAGATATGGTTG
66 TGATTCTTTACCCGCAAAATTTTAATGCGAGGTTGTGTTATGTACCATATATCTAGATATGGTTG
1435 GCTGAAGGCAGAGTTGCTTGTCGGGTTTAGATTTATACTTCTGATGTTTTAAACTGTGTTAGATT
131 GCTGAAGGCAGAGTTGCTTGTCGGGTTTAGATTTATACTTCTGATGTTTTAAACTGTGTTAGATT
1500 TATACTTCT
196 TATA-TTCT
1509 GATGTTTTAACATGCCGTTGCTGCTGACATTATAGGGCAATATATCATTTACCATATCTATGAAC
1 GATGTTTTAACATGCCGTTGCTGCTGACATTATAGGGCAATATATCATTTACCATATCTATGAAC
*
1574 TGATTCTTTACCCGCAAAATTTTAATGCGAGGTTGTGTTATGTATCATATATCTAGATATGGTTG
66 TGATTCTTTACCCGCAAAATTTTAATGCGAGGTTGTGTTATGTACCATATATCTAGATATGGTTG
1639 GCTGAAGGCAGAGTTGCTTGTCGGGTTTAGATTTATACTTCTGATGTTTTAAACTGTGTTAGATT
131 GCTGAAGGCAGAGTTGCTTGTCGGGTTTAGATTTATACTTCTGATGTTTTAAACTGTGTTAGATT
1704 TATATTCT
196 TATATTCT
1712 AACTATTTAT
Statistics
Matches: 201, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
203 4 0.02
204 197 0.98
ACGTcount: A:0.26, C:0.14, G:0.20, T:0.40
Consensus pattern (203 bp):
GATGTTTTAACATGCCGTTGCTGCTGACATTATAGGGCAATATATCATTTACCATATCTATGAAC
TGATTCTTTACCCGCAAAATTTTAATGCGAGGTTGTGTTATGTACCATATATCTAGATATGGTTG
GCTGAAGGCAGAGTTGCTTGTCGGGTTTAGATTTATACTTCTGATGTTTTAAACTGTGTTAGATT
TATATTCT
Done.