Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01015430.1 Corchorus capsularis cultivar CVL-1 contig15451, 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: 3542
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.33


Found at i:685 original size:29 final size:29

Alignment explanation


    Indices: 652--709  Score: 89
    Period size: 29  Copynumber: 2.0  Consensus size: 29

        642 AACTAGACCC

                        **               
        652 ATTACTAAAAATGCTTAAGCCATATAATT
          1 ATTACTAAAAATAATTAAGCCATATAATT

                                *        
        681 ATTACTAAAAATAATTAAGCTATATAATT
          1 ATTACTAAAAATAATTAAGCCATATAATT

        710 GAAATGTAGC


Statistics
Matches: 26,  Mismatches: 3, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
  29   26  1.00

ACGTcount: A:0.48, C:0.10, G:0.05, T:0.36


Consensus pattern (29 bp):   
ATTACTAAAAATAATTAAGCCATATAATT

Found at i:1299 original size:49 final size:48

Alignment explanation


    Indices: 1227--1353  Score: 220
    Period size: 47  Copynumber: 2.6  Consensus size: 48

       1217 GTTTCATTTC

                         *                                   
       1227 TCTTTTTGCGACCACTTTCTTTTTTTAGGCCCAGTTTTCTCTTTCTCTT
          1 TCTTTTTGCGACCTCTTT-TTTTTTTAGGCCCAGTTTTCTCTTTCTCTT

                                                            
       1276 TCTTTTTGCGACCTC-TTTTTTTTTAGGCCCAGTTTTCTCTTTCTCTT
          1 TCTTTTTGCGACCTCTTTTTTTTTTAGGCCCAGTTTTCTCTTTCTCTT

                              *            
       1323 TCTTTTTGCGACCTCTTTCTTTTTTAGGCCC
          1 TCTTTTTGCGACCTCTTTTTTTTTTAGGCCC

       1354 CCTCTTTTTT


Statistics
Matches: 75,  Mismatches: 2, Indels: 3
        0.94            0.03        0.04

Matches are distributed among these distances:
  47   45  0.60
  48   16  0.21
  49   14  0.19

ACGTcount: A:0.07, C:0.27, G:0.11, T:0.55


Consensus pattern (48 bp):   
TCTTTTTGCGACCTCTTTTTTTTTTAGGCCCAGTTTTCTCTTTCTCTT

Done.