Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01009358.1 Corchorus capsularis cultivar CVL-1 contig09379, 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: 10495
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30


Found at i:1309 original size:19 final size:18

Alignment explanation


    Indices: 1276--1311  Score: 54
    Period size: 19  Copynumber: 1.9  Consensus size: 18

       1266 TTGAAATAAT

                              
       1276 TCTTCAATGATCTTCAAA
          1 TCTTCAATGATCTTCAAA

                     *        
       1294 TCTTCAAATTATCTTCAA
          1 TCTTC-AATGATCTTCAA

       1312 GAAATCTTCA


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

Matches are distributed among these distances:
  18    5  0.31
  19   11  0.69

ACGTcount: A:0.33, C:0.22, G:0.03, T:0.42


Consensus pattern (18 bp):   
TCTTCAATGATCTTCAAA

Found at i:4838 original size:30 final size:31

Alignment explanation


    Indices: 4804--4878  Score: 93
    Period size: 30  Copynumber: 2.5  Consensus size: 31

       4794 CGGCTTGTGC

                             *         *    
       4804 CCGGTCTTGTGCGATTGGCC-C-ATGCCATGG
          1 CCGGTCTTGTGCGATT-CCCTCTATGCAATGG

                  *                        
       4834 CCGGTCATGTGCGA-TCCCTCTATGCAATGG
          1 CCGGTCTTGTGCGATTCCCTCTATGCAATGG

                           
       4864 CCGGTCTTGTGCGAT
          1 CCGGTCTTGTGCGAT

       4879 GGCATCCTCT


Statistics
Matches: 38,  Mismatches: 4, Indels: 5
        0.81            0.09        0.11

Matches are distributed among these distances:
  28    2  0.05
  29    2  0.05
  30   34  0.89

ACGTcount: A:0.12, C:0.29, G:0.31, T:0.28


Consensus pattern (31 bp):   
CCGGTCTTGTGCGATTCCCTCTATGCAATGG
Done.