Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01003870.1 Corchorus capsularis cultivar CVL-1 contig03878, 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: 3543
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.34


Found at i:296 original size:30 final size:30

Alignment explanation


    Indices: 260--336  Score: 88
    Period size: 29  Copynumber: 2.6  Consensus size: 30

        250 ATCAGAAAAT

                                           
        260 GGCTTATTTGGCCTTTTTAA-AGAGTTCAGG
          1 GGCTTATTTGGCC-TTTTAATAGAGTTCAGG

                           **              
        290 GGCTTATTTGG-C-TGCAATTAGAGTTCAGG
          1 GGCTTATTTGGCCTTTTAA-TAGAGTTCAGG

                              
        319 GGCTTATTTGGCCGTTTT
          1 GGCTTATTTGGCC-TTTT

        337 GTGTAAGTTC


Statistics
Matches: 38,  Mismatches: 4, Indels: 8
        0.76            0.08        0.16

Matches are distributed among these distances:
  27    3  0.08
  29   22  0.58
  30   12  0.32
  32    1  0.03

ACGTcount: A:0.17, C:0.14, G:0.29, T:0.40


Consensus pattern (30 bp):   
GGCTTATTTGGCCTTTTAATAGAGTTCAGG

Found at i:2350 original size:2 final size:2

Alignment explanation


    Indices: 2345--2375  Score: 55
    Period size: 2  Copynumber: 16.0  Consensus size: 2

       2335 TTTTTAACCT

                                                           
       2345 TA TA TA TA TA -A TA TA TA TA TA TA TA TA TA TA
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA

       2376 AAACTTAGTA


Statistics
Matches: 28,  Mismatches: 0, Indels: 2
        0.93            0.00        0.07

Matches are distributed among these distances:
   1    1  0.04
   2   27  0.96

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


Consensus pattern (2 bp):   
TA

Done.