Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01007442.1 Corchorus capsularis cultivar CVL-1 contig07463, 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: 4647
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.33


Found at i:2402 original size:7 final size:7

Alignment explanation


    Indices: 2390--2426  Score: 74
    Period size: 7  Copynumber: 5.3  Consensus size: 7

       2380 TATAATTTTC

                   
       2390 TCTTCTT
          1 TCTTCTT

                   
       2397 TCTTCTT
          1 TCTTCTT

                   
       2404 TCTTCTT
          1 TCTTCTT

                   
       2411 TCTTCTT
          1 TCTTCTT

                   
       2418 TCTTCTT
          1 TCTTCTT

              
       2425 TC
          1 TC

       2427 CTTTTTGTTT


Statistics
Matches: 30,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   7   30  1.00

ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70


Consensus pattern (7 bp):   
TCTTCTT

Found at i:3602 original size:20 final size:20

Alignment explanation


    Indices: 3579--3617  Score: 53
    Period size: 21  Copynumber: 1.9  Consensus size: 20

       3569 AAAAAGAAAA

                                 
       3579 CAAA-TAAACTAAATACTAAG
          1 CAAAGTAAACTAAAT-CTAAG

                     *         
       3599 CAAAGTAAATTAAATCTAA
          1 CAAAGTAAACTAAATCTAA

       3618 ATCTAAATCT


Statistics
Matches: 17,  Mismatches: 1, Indels: 2
        0.85            0.05        0.10

Matches are distributed among these distances:
  20    8  0.47
  21    9  0.53

ACGTcount: A:0.59, C:0.13, G:0.05, T:0.23


Consensus pattern (20 bp):   
CAAAGTAAACTAAATCTAAG

Found at i:3620 original size:6 final size:6

Alignment explanation


    Indices: 3604--3648  Score: 74
    Period size: 6  Copynumber: 7.7  Consensus size: 6

       3594 CTAAGCAAAG

                                                *                
       3604 TAAAT- TAAATC TAAATC TAAATC TAAATC TGAATC TAAATC TAAA
          1 TAAATC TAAATC TAAATC TAAATC TAAATC TAAATC TAAATC TAAA

       3649 GCAAATTAAT


Statistics
Matches: 37,  Mismatches: 2, Indels: 1
        0.93            0.05        0.03

Matches are distributed among these distances:
   5    5  0.14
   6   32  0.86

ACGTcount: A:0.51, C:0.13, G:0.02, T:0.33


Consensus pattern (6 bp):   
TAAATC

Done.