Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01011347.1 Corchorus capsularis cultivar CVL-1 contig11368, 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: 14593
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.31


Found at i:915 original size:6 final size:6

Alignment explanation


    Indices: 897--930  Score: 59
    Period size: 6  Copynumber: 5.5  Consensus size: 6

        887 ATTAATTTGC

                                                   
        897 TTTAGA TTTTAGA TTTAGA TTTAGA TTTAGA TTT
          1 TTTAGA -TTTAGA TTTAGA TTTAGA TTTAGA TTT

        931 GCTTTTCTTT


Statistics
Matches: 27,  Mismatches: 0, Indels: 1
        0.96            0.00        0.04

Matches are distributed among these distances:
   6   21  0.78
   7    6  0.22

ACGTcount: A:0.29, C:0.00, G:0.15, T:0.56


Consensus pattern (6 bp):   
TTTAGA

Found at i:7243 original size:13 final size:13

Alignment explanation


    Indices: 7225--7260  Score: 72
    Period size: 13  Copynumber: 2.8  Consensus size: 13

       7215 ATAATTATTG

                         
       7225 TTTGCTTTATTAA
          1 TTTGCTTTATTAA

                         
       7238 TTTGCTTTATTAA
          1 TTTGCTTTATTAA

                      
       7251 TTTGCTTTAT
          1 TTTGCTTTAT

       7261 ATTTTAGATT


Statistics
Matches: 23,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  13   23  1.00

ACGTcount: A:0.19, C:0.08, G:0.08, T:0.64


Consensus pattern (13 bp):   
TTTGCTTTATTAA

Found at i:9507 original size:20 final size:19

Alignment explanation


    Indices: 9482--9519  Score: 67
    Period size: 19  Copynumber: 1.9  Consensus size: 19

       9472 GGTTTTTCCA

                                
       9482 TTTTTTTCATTTTTCTTTTG
          1 TTTTTTTC-TTTTTCTTTTG

                              
       9502 TTTTTTTCTTTTTCTTTT
          1 TTTTTTTCTTTTTCTTTT

       9520 CAAATTTTGA


Statistics
Matches: 18,  Mismatches: 0, Indels: 1
        0.95            0.00        0.05

Matches are distributed among these distances:
  19   10  0.56
  20    8  0.44

ACGTcount: A:0.03, C:0.11, G:0.03, T:0.84


Consensus pattern (19 bp):   
TTTTTTTCTTTTTCTTTTG
Done.