Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01022430.1 Corchorus olitorius cultivar O-4 contig22463, 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: 10756
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.33


Found at i:9157 original size:29 final size:29

Alignment explanation


    Indices: 9109--9164  Score: 87
    Period size: 29  Copynumber: 1.9  Consensus size: 29

       9099 TCCAAATTGC

                        *                 
       9109 AAGTTTAGGGGGGCAAAATGTCTAAAATTA
          1 AAGTTTAGGGGGACAAAATGTC-AAAATTA

                                       
       9139 AAGTTTA-GGGGACAAAATGTCAAAAT
          1 AAGTTTAGGGGGACAAAATGTCAAAAT

       9165 CATACAAATT


Statistics
Matches: 25,  Mismatches: 1, Indels: 2
        0.89            0.04        0.07

Matches are distributed among these distances:
  28    5  0.20
  29   13  0.52
  30    7  0.28

ACGTcount: A:0.43, C:0.07, G:0.25, T:0.25


Consensus pattern (29 bp):   
AAGTTTAGGGGGACAAAATGTCAAAATTA

Found at i:9188 original size:31 final size:29

Alignment explanation


    Indices: 9112--9188  Score: 84
    Period size: 31  Copynumber: 2.6  Consensus size: 29

       9102 AAATTGCAAG

                                         *
       9112 TTTAGGGGGGCAAAATGTCTAAAATTAAAG
          1 TTTA-GGGGGCAAAATGTCTAAAATTAAAA

                    *                       
       9142 TTTAGGGGACAAAATGTC-AAAATCATACAAA
          1 TTTAGGGGGCAAAATGTCTAAAAT--TA-AAA

                      *     
       9173 TTTAGGGGGCGAAATG
          1 TTTAGGGGGCAAAATG

       9189 AGCACTAAGC


Statistics
Matches: 40,  Mismatches: 4, Indels: 5
        0.82            0.08        0.10

Matches are distributed among these distances:
  28    5  0.12
  29   13  0.32
  30    6  0.15
  31   16  0.40

ACGTcount: A:0.40, C:0.09, G:0.26, T:0.25


Consensus pattern (29 bp):   
TTTAGGGGGCAAAATGTCTAAAATTAAAA
Done.