Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01015428.1 Corchorus capsularis cultivar CVL-1 contig15449, 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: 10018
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31


Found at i:1621 original size:33 final size:33

Alignment explanation


    Indices: 1524--1628  Score: 122
    Period size: 33  Copynumber: 3.2  Consensus size: 33

       1514 TTGCAAAGAA

                                     *      * 
       1524 TGTTTT-AGATGTTGTTTGCGATGATACTAAACC
          1 TGTTTTAAG-TGTTGTTTGCGATGAAACTAAATC

             **                *    *       *
       1557 TAATTTAAGTGTTGTTTGCAATGACACTAAATT
          1 TGTTTTAAGTGTTGTTTGCGATGAAACTAAATC

                              *              
       1590 TGTTTTAAGTGTTGTTTGTGATGAAACTAAATC
          1 TGTTTTAAGTGTTGTTTGCGATGAAACTAAATC

                  
       1623 TGTTTT
          1 TGTTTT

       1629 GGATGCTAAT


Statistics
Matches: 59,  Mismatches: 12, Indels: 2
        0.81            0.16        0.03

Matches are distributed among these distances:
  33   57  0.97
  34    2  0.03

ACGTcount: A:0.27, C:0.09, G:0.19, T:0.46


Consensus pattern (33 bp):   
TGTTTTAAGTGTTGTTTGCGATGAAACTAAATC

Found at i:1684 original size:33 final size:33

Alignment explanation


    Indices: 1644--1729  Score: 136
    Period size: 33  Copynumber: 2.6  Consensus size: 33

       1634 CTAATTGTGA

                                         *   
       1644 TGAAAATAATTCTGTTTTGGTTGATCATAGCAT
          1 TGAAAATAATTCTGTTTTGGTTGATCATAACAT

              *          *                 * 
       1677 TGCAAATAATTCTATTTTGGTTGATCATAACGT
          1 TGAAAATAATTCTGTTTTGGTTGATCATAACAT

                                
       1710 TGAAAATAATTCTGTTTTGG
          1 TGAAAATAATTCTGTTTTGG

       1730 GTGAAAAGAA


Statistics
Matches: 47,  Mismatches: 6, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  33   47  1.00

ACGTcount: A:0.30, C:0.09, G:0.17, T:0.43


Consensus pattern (33 bp):   
TGAAAATAATTCTGTTTTGGTTGATCATAACAT
Done.