Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01011481.1 Corchorus capsularis cultivar CVL-1 contig11502, 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: 1890
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35


Found at i:280 original size:21 final size:21

Alignment explanation


    Indices: 255--294  Score: 55
    Period size: 21  Copynumber: 1.9  Consensus size: 21

        245 GATAAAATAG

                         *        
        255 TTAAA-AAAATATTGAATTTAA
          1 TTAAATAAAA-ATAGAATTTAA

                               
        276 TTAAATAAAAATAGAATTT
          1 TTAAATAAAAATAGAATTT

        295 TTGGTAAAAT


Statistics
Matches: 17,  Mismatches: 1, Indels: 2
        0.85            0.05        0.10

Matches are distributed among these distances:
  21   13  0.76
  22    4  0.24

ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38


Consensus pattern (21 bp):   
TTAAATAAAAATAGAATTTAA

Found at i:1249 original size:28 final size:30

Alignment explanation


    Indices: 1198--1259  Score: 74
    Period size: 28  Copynumber: 2.1  Consensus size: 30

       1188 TTTGAAAAAG

                *              **         
       1198 TAAGGGATTAATTTGT-CCTGAAA-AAACA
          1 TAAGAGATTAATTTGTCCCAAAAACAAACA

                      *                   
       1226 TAAGAGATTATTTTGTCCCAAAAACAAACA
          1 TAAGAGATTAATTTGTCCCAAAAACAAACA

                
       1256 TAAG
          1 TAAG

       1260 GTATTTTTTG


Statistics
Matches: 28,  Mismatches: 4, Indels: 2
        0.82            0.12        0.06

Matches are distributed among these distances:
  28   14  0.50
  29    5  0.18
  30    9  0.32

ACGTcount: A:0.45, C:0.13, G:0.15, T:0.27


Consensus pattern (30 bp):   
TAAGAGATTAATTTGTCCCAAAAACAAACA
Done.