Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01000063.1 Corchorus capsularis cultivar CVL-1 contig00063, 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, 693
Length: 1156
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Found at i:454 original size:166 final size:165
Alignment explanation
Indices: 181--515 Score: 643
Period size: 166 Copynumber: 2.0 Consensus size: 165
171 GGGGTGACAA
181 CCTTGTCTAAGTTGCGCGAATTGAACCTGAAGTTCAATACCTATAAAAAAAACCGAATCACTCGA
1 CCTTGTCTAAGTTGCGCGAATTGAACCTGAAGTTCAATACCTATAAAAAAAACCGAATCACTCGA
246 TGAAACAGCATCTGAGGACGATGTCAACTTTGATACGCGAGCTTAGTGCAGCTGGGGTTGCCTTG
66 TGAAACAGCATCTGAGGACGATGTCAACTTTGATACGCGAGCTTAGTGCAGCTGGGGTTGCCTTG
311 ACTAATGAACAGCAGGTTCAGGCTGTGATTTCCTC
131 ACTAATGAACAGCAGGTTCAGGCTGTGATTTCCTC
*
346 CCTTGTCTAAGTTGCGCGAATTGAACCTGAAGTTCAATACCTATAAGAAAAAGCCGAATCACTCG
1 CCTTGTCTAAGTTGCGCGAATTGAACCTGAAGTTCAATACCTATAA-AAAAAACCGAATCACTCG
*
411 ATGAAACAGCATCTGAGGACGATGTCGACTTTGATACGCGAGCTTAGTGCAGCTGGGGTTGCCTT
65 ATGAAACAGCATCTGAGGACGATGTCAACTTTGATACGCGAGCTTAGTGCAGCTGGGGTTGCCTT
476 GACTAATGAACAGCAGGTTCAGGCTGTGATTTCCTC
130 GACTAATGAACAGCAGGTTCAGGCTGTGATTTCCTC
512 CCTT
1 CCTT
516 CCTAACTCTT
Statistics
Matches: 167, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
165 46 0.28
166 121 0.72
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (165 bp):
CCTTGTCTAAGTTGCGCGAATTGAACCTGAAGTTCAATACCTATAAAAAAAACCGAATCACTCGA
TGAAACAGCATCTGAGGACGATGTCAACTTTGATACGCGAGCTTAGTGCAGCTGGGGTTGCCTTG
ACTAATGAACAGCAGGTTCAGGCTGTGATTTCCTC
Done.