Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Cotton_A_26522
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: 3318
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Found at i:986 original size:144 final size:144
Alignment explanation
Indices: 838--1139 Score: 480
Period size: 144 Copynumber: 2.1 Consensus size: 144
828 TAATTATCTC
** * *
838 TCTGGTTCTATCCCCAGTGAGATAGGAATGCTCAAATCGCTTTCCGTGTTGCAGTTGTTGAAAAA
1 TCTGGTTCTATCCCCAGTGAGATAGGAATGCTCAAATCGCTTTCCGACTTACAGTTGTCGAAAAA
*
903 CAATCTCACTGGTGTCATCCCT-ATTTCCATAGGAAACTTGACTAACTTGGACAATCTTGAGCTT
66 CAATCTCACTGGTGTCATCCCTGA-TTCCATAGCAAACTTGACTAACTTGGACAATCTTGAGCTT
967 GATTCTAATGGGCTT
130 GATTCTAATGGGCTT
* * * *
982 TCTGGTTCTATCCCCAGTGAGATAGGAATGCTCAAATCTCTTTTCGACTTACAGTTGTCGGAGAA
1 TCTGGTTCTATCCCCAGTGAGATAGGAATGCTCAAATCGCTTTCCGACTTACAGTTGTCGAAAAA
* * *
1047 TAATCTCACTGGTGTCATCCCTGATTCCATAGCAAACTTGACTAACTTGGACAATCTTGGGCTTT
66 CAATCTCACTGGTGTCATCCCTGATTCCATAGCAAACTTGACTAACTTGGACAATCTTGAGCTTG
1112 ATTCTAATGGGCTT
131 ATTCTAATGGGCTT
1126 TCTGGTTCTATCCC
1 TCTGGTTCTATCCC
1140 AACTTCCATG
Statistics
Matches: 145, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
144 144 0.99
145 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.34
Consensus pattern (144 bp):
TCTGGTTCTATCCCCAGTGAGATAGGAATGCTCAAATCGCTTTCCGACTTACAGTTGTCGAAAAA
CAATCTCACTGGTGTCATCCCTGATTCCATAGCAAACTTGACTAACTTGGACAATCTTGAGCTTG
ATTCTAATGGGCTT
Done.