Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01013498.1 Corchorus capsularis cultivar CVL-1 contig13519, 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: 4067
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.35


Found at i:1193 original size:13 final size:13

Alignment explanation


    Indices: 1139--1195  Score: 55
    Period size: 13  Copynumber: 4.4  Consensus size: 13

       1129 TCCTACGTCT

                         
       1139 CTTCTCTC-TTTC
          1 CTTCTCTCTTTTC

            *           *
       1151 GTTCTCTCTTTTG
          1 CTTCTCTCTTTTC

                           
       1164 CTTCTC-CGTTTTGC
          1 CTTCTCTC-TTTT-C

                     *   
       1178 CTTCTCTCTCTTC
          1 CTTCTCTCTTTTC

                 
       1191 CTTCT
          1 CTTCT

       1196 TTGCTTCTTC


Statistics
Matches: 36,  Mismatches: 5, Indels: 7
        0.75            0.10        0.15

Matches are distributed among these distances:
  12    8  0.22
  13   18  0.50
  14    9  0.25
  15    1  0.03

ACGTcount: A:0.00, C:0.37, G:0.07, T:0.56


Consensus pattern (13 bp):   
CTTCTCTCTTTTC

Found at i:3119 original size:24 final size:24

Alignment explanation


    Indices: 3092--3150  Score: 82
    Period size: 24  Copynumber: 2.5  Consensus size: 24

       3082 GAAGATGGGG

                                    
       3092 AAAGTTCTGGAAGGACAGATAATA
          1 AAAGTTCTGGAAGGACAGATAATA

                    *           *   
       3116 AAAGTTCTCGAAGGACAGATGATA
          1 AAAGTTCTGGAAGGACAGATAATA

            *     *    
       3140 TAAGTTGTGGA
          1 AAAGTTCTGGA

       3151 CAAGATAGAA


Statistics
Matches: 30,  Mismatches: 5, Indels: 0
        0.86            0.14        0.00

Matches are distributed among these distances:
  24   30  1.00

ACGTcount: A:0.41, C:0.08, G:0.27, T:0.24


Consensus pattern (24 bp):   
AAAGTTCTGGAAGGACAGATAATA
Done.