Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold1758
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, 794
Length: 1324
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Found at i:1173 original size:193 final size:192
Alignment explanation
Indices: 757--1174 Score: 601
Period size: 192 Copynumber: 2.2 Consensus size: 192
747 ACACAGATAT
* * * * * *
757 GGCTGAAAAA-TTGGAAATTCTCATAGTTTTGCGAGCATCTAGGAGCTAGAAGCTTTCAATCGAC
1 GGCTGAAAAATTTGG-AAGTCTGAAAATTTTGCGAGCATCTAGAAGCTAGAAGCTTGCAATCGAC
821 CCAAAAATCGTAAAAATCGCCCCGGTAGATCTCTCAAAATAGGCGTTACAACAGGAACATAACCA
65 CCAAAAATCGTAAAAATCGCCCCGGTAGATCTCTCAAAATAGGCGTTACAACAGGAACATAACCA
* * *
886 ATTCCCGGGAACTTAAGGCCGGAGGGGGGTGGATTTGGCTTTAAGAGCGTCTCAGGAAGAAGA
130 ACTCCCGGAAACTTAAGGCCGGAGGGGGGTGGATTTGGCTTTAAAAGCGTCTCAGGAAGAAGA
* * * **
949 GTCTGAAAAATTTGGAAGTCTGACAATTTTGCGAGCATCTAGAAGCTAGGAGCTTGCGGTCGACC
1 GGCTGAAAAATTTGGAAGTCTGAAAATTTTGCGAGCATCTAGAAGCTAGAAGCTTGCAATCGACC
* *
1014 CAAAAATCGTAAAAATCGCCCCGGTAGATCTCTCAAATTAGGCGTTACAAC-GGAAACATACCGC
66 CAAAAATCGTAAAAATCGCCCCGGTAGATCTCTCAAAATAGGCGTTACAACAGG-AACATAAC-C
* *
1078 AACTCTCGGAAACTTAAGGTCGGAGGGGGGTGGATTTGGCTTTAAAAGCGTCTCAAGCG-A-AAG
129 AACTCCCGGAAACTTAAGGCCGGAGGGGGGTGGATTTGGCTTTAAAAGCGTCTC-AG-GAAGAAG
1141 A
192 A
1142 GGCTGAAAAATTTGGAAGTCTGAAAATTTTGCG
1 GGCTGAAAAATTTGGAAGTCTGAAAATTTTGCG
1175 GACATCGGGA
Statistics
Matches: 202, Mismatches: 19, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
191 2 0.01
192 107 0.53
193 89 0.44
194 3 0.01
195 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.23
Consensus pattern (192 bp):
GGCTGAAAAATTTGGAAGTCTGAAAATTTTGCGAGCATCTAGAAGCTAGAAGCTTGCAATCGACC
CAAAAATCGTAAAAATCGCCCCGGTAGATCTCTCAAAATAGGCGTTACAACAGGAACATAACCAA
CTCCCGGAAACTTAAGGCCGGAGGGGGGTGGATTTGGCTTTAAAAGCGTCTCAGGAAGAAGA
Done.