Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01001380.1 Corchorus capsularis cultivar CVL-1 contig01380, 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: 7239
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31


Found at i:7112 original size:30 final size:30

Alignment explanation


    Indices: 7067--7136  Score: 97
    Period size: 31  Copynumber: 2.3  Consensus size: 30

       7057 CGTTTAGATG

                                          
       7067 TTTTGCCCCCCGAACTTCAATCTT-GGACA
          1 TTTTGCCCCCCGAACTTCAATCTTGGGACA

                                  *       *
       7096 TTTTGCCCCCCTGAACTTCAATTTTGGGACG
          1 TTTTGCCCCCC-GAACTTCAATCTTGGGACA

                *     
       7127 TTTTACCCCC
          1 TTTTGCCCCC

       7137 TCAACTTAAC


Statistics
Matches: 36,  Mismatches: 3, Indels: 2
        0.88            0.07        0.05

Matches are distributed among these distances:
  29   11  0.31
  30   12  0.33
  31   13  0.36

ACGTcount: A:0.17, C:0.34, G:0.14, T:0.34


Consensus pattern (30 bp):   
TTTTGCCCCCCGAACTTCAATCTTGGGACA

Found at i:7137 original size:30 final size:29

Alignment explanation


    Indices: 7066--7143  Score: 84
    Period size: 30  Copynumber: 2.6  Consensus size: 29

       7056 GCGTTTAGAT

                 *     *                 
       7066 GTTTTGCCCCCCGAACTTCAATCTTGGAC
          1 GTTTTACCCCCTGAACTTCAATCTTGGAC

            *     *                *       
       7095 ATTTTGCCCCCCTGAACTTCAATTTTGGGAC
          1 GTTTT-ACCCCCTGAACTTCAATCTT-GGAC

                        *     
       7126 GTTTTACCCCCTCAACTT
          1 GTTTTACCCCCTGAACTT

       7144 AACGGATCCG


Statistics
Matches: 40,  Mismatches: 7, Indels: 3
        0.80            0.14        0.06

Matches are distributed among these distances:
  29    4  0.10
  30   28  0.70
  31    8  0.20

ACGTcount: A:0.18, C:0.33, G:0.14, T:0.35


Consensus pattern (29 bp):   
GTTTTACCCCCTGAACTTCAATCTTGGAC
Done.