Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01011476.1 Corchorus capsularis cultivar CVL-1 contig11497, 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: 4005
ACGTcount: A:0.38, C:0.12, G:0.11, T:0.39


Found at i:1191 original size:30 final size:29

Alignment explanation


    Indices: 1156--1221  Score: 89
    Period size: 29  Copynumber: 2.2  Consensus size: 29

       1146 AATAATCATT

                                 *         
       1156 ATAATTCCATCTATACCAATATA-GTGCTAC
          1 ATAATTCCATC--TACCAATAAACGTGCTAC

                                     *   
       1186 ATAATTCCATCTACCAATAAACGTGTTAC
          1 ATAATTCCATCTACCAATAAACGTGCTAC

                   
       1215 ATAATTC
          1 ATAATTC

       1222 TCTAATTTGT


Statistics
Matches: 33,  Mismatches: 2, Indels: 3
        0.87            0.05        0.08

Matches are distributed among these distances:
  28    9  0.27
  29   13  0.39
  30   11  0.33

ACGTcount: A:0.38, C:0.23, G:0.06, T:0.33


Consensus pattern (29 bp):   
ATAATTCCATCTACCAATAAACGTGCTAC

Found at i:2658 original size:19 final size:18

Alignment explanation


    Indices: 2624--2659  Score: 54
    Period size: 18  Copynumber: 1.9  Consensus size: 18

       2614 ACTATTAAAA

                     *        
       2624 AAACAATTAGAGGTTATC
          1 AAACAATTAAAGGTTATC

                              
       2642 AAACAATTATAAGGTTAT
          1 AAACAATTA-AAGGTTAT

       2660 TAATAAATTC


Statistics
Matches: 16,  Mismatches: 1, Indels: 1
        0.89            0.06        0.06

Matches are distributed among these distances:
  18    9  0.56
  19    7  0.44

ACGTcount: A:0.47, C:0.08, G:0.14, T:0.31


Consensus pattern (18 bp):   
AAACAATTAAAGGTTATC
Done.