Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01019853.1 Corchorus olitorius cultivar O-4 contig19886, 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, 1000

Length: 10590
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32


Found at i:1235 original size:30 final size:30

Alignment explanation


    Indices: 1199--1291  Score: 161
    Period size: 30  Copynumber: 3.1  Consensus size: 30

       1189 TCTTCAAGGG

                           *               
       1199 GGAGGGAATGATGCTCCCAAGG-CTTATCAT
          1 GGAGGGAATGATGC-GCCAAGGACTTATCAT

                                          
       1229 GGAGGGAATGATGCGCCAAGGACTTATCAT
          1 GGAGGGAATGATGCGCCAAGGACTTATCAT

                                          
       1259 GGAGGGAATGATGCGCCAAGGACTTATCAT
          1 GGAGGGAATGATGCGCCAAGGACTTATCAT

               
       1289 GGA
          1 GGA

       1292 CTTGAAGATG


Statistics
Matches: 61,  Mismatches: 1, Indels: 2
        0.95            0.02        0.03

Matches are distributed among these distances:
  29    6  0.10
  30   55  0.90

ACGTcount: A:0.29, C:0.17, G:0.33, T:0.20


Consensus pattern (30 bp):   
GGAGGGAATGATGCGCCAAGGACTTATCAT

Found at i:7341 original size:22 final size:22

Alignment explanation


    Indices: 7299--7341  Score: 52
    Period size: 22  Copynumber: 2.0  Consensus size: 22

       7289 TTTCTAATTA

                           **     
       7299 ATTGTTTTCTTTAATTTTCTTG
          1 ATTGTTTTCTTTAATAGTCTTG

                                  
       7321 ATTGTTTTC-TTAGATAGTCTT
          1 ATTGTTTTCTTTA-ATAGTCTT

       7342 AATTACTAGT


Statistics
Matches: 18,  Mismatches: 2, Indels: 2
        0.82            0.09        0.09

Matches are distributed among these distances:
  21    3  0.17
  22   15  0.83

ACGTcount: A:0.16, C:0.09, G:0.12, T:0.63


Consensus pattern (22 bp):   
ATTGTTTTCTTTAATAGTCTTG
Done.