Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01011810.1 Corchorus capsularis cultivar CVL-1 contig11831, 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: 17490
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.33


Found at i:816 original size:5 final size:5

Alignment explanation


    Indices: 806--838  Score: 66
    Period size: 5  Copynumber: 6.6  Consensus size: 5

        796 ACAAAATCCA

                                                   
        806 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTT
          1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTT

        839 GGATAGTCTT


Statistics
Matches: 28,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   5   28  1.00

ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82


Consensus pattern (5 bp):   
TTTTC

Found at i:6292 original size:6 final size:6

Alignment explanation


    Indices: 6281--6305  Score: 50
    Period size: 6  Copynumber: 4.2  Consensus size: 6

       6271 TTTCCTAACA

                                         
       6281 ATCTAT ATCTAT ATCTAT ATCTAT A
          1 ATCTAT ATCTAT ATCTAT ATCTAT A

       6306 CTTTTAGTAA


Statistics
Matches: 19,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   6   19  1.00

ACGTcount: A:0.36, C:0.16, G:0.00, T:0.48


Consensus pattern (6 bp):   
ATCTAT

Found at i:12462 original size:17 final size:18

Alignment explanation


    Indices: 12442--12475  Score: 52
    Period size: 18  Copynumber: 1.9  Consensus size: 18

      12432 TGGTAATAGC

                              
      12442 CATTT-CAATGTAACTTT
          1 CATTTACAATGTAACTTT

                   *         
      12459 CATTTACCATGTAACTT
          1 CATTTACAATGTAACTT

      12476 AATTGGCTCA


Statistics
Matches: 15,  Mismatches: 1, Indels: 1
        0.88            0.06        0.06

Matches are distributed among these distances:
  17    5  0.33
  18   10  0.67

ACGTcount: A:0.29, C:0.21, G:0.06, T:0.44


Consensus pattern (18 bp):   
CATTTACAATGTAACTTT
Done.