Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01009472.1 Corchorus capsularis cultivar CVL-1 contig09493, 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: 20625
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.31


Found at i:10535 original size:17 final size:17

Alignment explanation


    Indices: 10502--10535  Score: 50
    Period size: 17  Copynumber: 2.0  Consensus size: 17

      10492 TGAATGTGCT

                       **    
      10502 GCAAAATTTAATTATCA
          1 GCAAAATTTAAACATCA

                             
      10519 GCAAAATTTAAACATCA
          1 GCAAAATTTAAACATCA

      10536 AGAGCAGAAA


Statistics
Matches: 15,  Mismatches: 2, Indels: 0
        0.88            0.12        0.00

Matches are distributed among these distances:
  17   15  1.00

ACGTcount: A:0.50, C:0.15, G:0.06, T:0.29


Consensus pattern (17 bp):   
GCAAAATTTAAACATCA

Found at i:11783 original size:14 final size:15

Alignment explanation


    Indices: 11756--11784  Score: 51
    Period size: 14  Copynumber: 2.0  Consensus size: 15

      11746 TAATCAATAT

                           
      11756 CAATATACTATATAA
          1 CAATATACTATATAA

                           
      11771 CAATATA-TATATAA
          1 CAATATACTATATAA

      11785 AGGTGGCCAT


Statistics
Matches: 14,  Mismatches: 0, Indels: 1
        0.93            0.00        0.07

Matches are distributed among these distances:
  14    7  0.50
  15    7  0.50

ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34


Consensus pattern (15 bp):   
CAATATACTATATAA

Found at i:13483 original size:27 final size:27

Alignment explanation


    Indices: 13452--13548  Score: 185
    Period size: 27  Copynumber: 3.6  Consensus size: 27

      13442 TATATGCATG

                                       
      13452 GAATCTGATGAACGAACGAGGGAGTGA
          1 GAATCTGATGAACGAACGAGGGAGTGA

                                       
      13479 GAATCTGATGAACGAACGAGGGAGTGA
          1 GAATCTGATGAACGAACGAGGGAGTGA

                                       
      13506 GAATCTGATGAACGAACGAGGGAGTGA
          1 GAATCTGATGAACGAACGAGGGAGTGA

             *              
      13533 GTATCTGATGAACGAA
          1 GAATCTGATGAACGAA

      13549 TGGGCGACTG


Statistics
Matches: 69,  Mismatches: 1, Indels: 0
        0.99            0.01        0.00

Matches are distributed among these distances:
  27   69  1.00

ACGTcount: A:0.37, C:0.11, G:0.35, T:0.16


Consensus pattern (27 bp):   
GAATCTGATGAACGAACGAGGGAGTGA
Done.