Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01015973.1 Corchorus capsularis cultivar CVL-1 contig15994, 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: 2170
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.37


Found at i:1195 original size:46 final size:48

Alignment explanation


    Indices: 1144--1236  Score: 136
    Period size: 46  Copynumber: 2.0  Consensus size: 48

       1134 AAAAAAAATG

                               *          *                 
       1144 TCATAGTGCTATCAAGAAATAAAGG-TT-TGTAATCCCTTTATGTTAA
          1 TCATAGTGCTATCAAGAAACAAAGGTTTATATAATCCCTTTATGTTAA

                   **                                      
       1190 TCATAGTTTTATCAAGAAACAAAGGTTTATATAATCCCTTTATGTTA
          1 TCATAGTGCTATCAAGAAACAAAGGTTTATATAATCCCTTTATGTTA

       1237 GCATCTTACA


Statistics
Matches: 41,  Mismatches: 4, Indels: 2
        0.87            0.09        0.04

Matches are distributed among these distances:
  46   22  0.54
  47    2  0.05
  48   17  0.41

ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39


Consensus pattern (48 bp):   
TCATAGTGCTATCAAGAAACAAAGGTTTATATAATCCCTTTATGTTAA

Found at i:1533 original size:2 final size:2

Alignment explanation


    Indices: 1526--1558  Score: 50
    Period size: 2  Copynumber: 17.0  Consensus size: 2

       1516 TTACCAGAAT

                                                *             
       1526 TA TA TA TA TA TA TA TA TA TA TA TA AA TA T- TA TA
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA

       1559 AACATGACCC


Statistics
Matches: 28,  Mismatches: 2, Indels: 2
        0.88            0.06        0.06

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.