Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01014022.1 Corchorus capsularis cultivar CVL-1 contig14043, 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: 4046
ACGTcount: A:0.36, C:0.13, G:0.14, T:0.37


Found at i:805 original size:32 final size:30

Alignment explanation


    Indices: 764--832  Score: 86
    Period size: 32  Copynumber: 2.2  Consensus size: 30

        754 AGTGTTGTTA

                             *               
        764 AAAAAAAGGGCA-AAATGTTATCGTCTTTTTAC
          1 AAAAAAAGGGCACAAATCTT-TC-TCTTTTT-C

                                         *
        796 AAAAAAAGGGCACAAATCTTTCTCTTTTTT
          1 AAAAAAAGGGCACAAATCTTTCTCTTTTTC

                   
        826 AAAAAAA
          1 AAAAAAA

        833 TTAATTTCTT


Statistics
Matches: 34,  Mismatches: 2, Indels: 4
        0.85            0.05        0.10

Matches are distributed among these distances:
  30    7  0.21
  31    7  0.21
  32   14  0.41
  33    6  0.18

ACGTcount: A:0.45, C:0.13, G:0.12, T:0.30


Consensus pattern (30 bp):   
AAAAAAAGGGCACAAATCTTTCTCTTTTTC

Found at i:3100 original size:2 final size:2

Alignment explanation


    Indices: 3093--3121  Score: 58
    Period size: 2  Copynumber: 14.5  Consensus size: 2

       3083 ATCTTCTTTT

                                                       
       3093 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T

       3122 TAATTACACA


Statistics
Matches: 27,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   27  1.00

ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52


Consensus pattern (2 bp):   
TA

Found at i:3754 original size:21 final size:21

Alignment explanation


    Indices: 3728--3772  Score: 63
    Period size: 21  Copynumber: 2.1  Consensus size: 21

       3718 AAAACCTGGA

                         *       
       3728 TTGCTAAACACCGTCCCATTT
          1 TTGCTAAACACCGCCCCATTT

                  **             
       3749 TTGCTATTCACCGCCCCATTT
          1 TTGCTAAACACCGCCCCATTT

               
       3770 TTG
          1 TTG

       3773 ACGCTTTTTT


Statistics
Matches: 21,  Mismatches: 3, Indels: 0
        0.88            0.12        0.00

Matches are distributed among these distances:
  21   21  1.00

ACGTcount: A:0.18, C:0.33, G:0.11, T:0.38


Consensus pattern (21 bp):   
TTGCTAAACACCGCCCCATTT
Done.