Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Cotton_A_26528
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: 3156
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Found at i:1015 original size:144 final size:144
Alignment explanation
Indices: 838--1139 Score: 516
Period size: 144 Copynumber: 2.1 Consensus size: 144
828 TAATAATCTC
* * * *
838 TCTGGTTCTATCCCCAGTGAGATAGGGATGCTCAAATCTCTTTTCGACTTGCAGTTGTCGGACAA
1 TCTGGTTCTATCCCCACTGAGATAGGAATGCTCAAATCTCTTTTCGACTTGCAGTTATCGAACAA
*
903 TAATCTCACTGGTGTCATCCCTGATTCCATAGGAAACTTGACCAACTTG-GACAATCTTGTGCTT
66 TAATCTCACTGGTGCCATCCCTGATTCCATAGGAAACTTGACCAACTTGAG-CAATCTTGTGCTT
967 AATTTTAATGGGCTT
130 AATTTTAATGGGCTT
982 TCTGGTTCTATCCCCACTGAGATAGGAATGCTCAAATCTCTTTTCGACTTGCAGTTATCGAACAA
1 TCTGGTTCTATCCCCACTGAGATAGGAATGCTCAAATCTCTTTTCGACTTGCAGTTATCGAACAA
* *
1047 TAATCTCACTGGTGCCATCCCTGATTCCATAGGAAACTTGACTAACTTGAGCAATCTTGTGCTTC
66 TAATCTCACTGGTGCCATCCCTGATTCCATAGGAAACTTGACCAACTTGAGCAATCTTGTGCTTA
1112 ATTTTAATGGGCTT
131 ATTTTAATGGGCTT
*
1126 TCTGGTTCAATCCC
1 TCTGGTTCTATCCC
1140 AACTTCCATG
Statistics
Matches: 149, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
144 148 0.99
145 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.34
Consensus pattern (144 bp):
TCTGGTTCTATCCCCACTGAGATAGGAATGCTCAAATCTCTTTTCGACTTGCAGTTATCGAACAA
TAATCTCACTGGTGCCATCCCTGATTCCATAGGAAACTTGACCAACTTGAGCAATCTTGTGCTTA
ATTTTAATGGGCTT
Done.