Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01013340.1 Corchorus capsularis cultivar CVL-1 contig13361, 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: 5142
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30


Found at i:1550 original size:12 final size:13

Alignment explanation


    Indices: 1509--1553  Score: 65
    Period size: 13  Copynumber: 3.5  Consensus size: 13

       1499 AATTATTGTT

                     *   
       1509 TGCTTTATTGATC
          1 TGCTTTATTAATC

                        *
       1522 TGCTTTATTAATT
          1 TGCTTTATTAATC

                         
       1535 TGCTTTA-TAATC
          1 TGCTTTATTAATC

                   
       1547 TGCTTTA
          1 TGCTTTA

       1554 GATTTAGATT


Statistics
Matches: 29,  Mismatches: 3, Indels: 1
        0.88            0.09        0.03

Matches are distributed among these distances:
  12   11  0.38
  13   18  0.62

ACGTcount: A:0.20, C:0.13, G:0.11, T:0.56


Consensus pattern (13 bp):   
TGCTTTATTAATC

Found at i:1561 original size:6 final size:6

Alignment explanation


    Indices: 1550--1576  Score: 54
    Period size: 6  Copynumber: 4.5  Consensus size: 6

       1540 TATAATCTGC

                                           
       1550 TTTAGA TTTAGA TTTAGA TTTAGA TTT
          1 TTTAGA TTTAGA TTTAGA TTTAGA TTT

       1577 GCTTTGCTTT


Statistics
Matches: 21,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   6   21  1.00

ACGTcount: A:0.30, C:0.00, G:0.15, T:0.56


Consensus pattern (6 bp):   
TTTAGA

Done.