Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01005915.1 Corchorus capsularis cultivar CVL-1 contig05933, 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: 8128
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34


Found at i:1353 original size:2 final size:2

Alignment explanation


    Indices: 1346--1375  Score: 60
    Period size: 2  Copynumber: 15.0  Consensus size: 2

       1336 TACAATTTTA

                                                        
       1346 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
          1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT

       1376 GATACCAAAA


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

Matches are distributed among these distances:
   2   28  1.00

ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50


Consensus pattern (2 bp):   
AT

Found at i:3340 original size:11 final size:11

Alignment explanation


    Indices: 3326--3357  Score: 64
    Period size: 11  Copynumber: 2.9  Consensus size: 11

       3316 AGTGATTAAT

                       
       3326 TATTGATTTAC
          1 TATTGATTTAC

                       
       3337 TATTGATTTAC
          1 TATTGATTTAC

                      
       3348 TATTGATTTA
          1 TATTGATTTA

       3358 GTTAATTAAT


Statistics
Matches: 21,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  11   21  1.00

ACGTcount: A:0.28, C:0.06, G:0.09, T:0.56


Consensus pattern (11 bp):   
TATTGATTTAC

Found at i:5732 original size:6 final size:6

Alignment explanation


    Indices: 5721--5763  Score: 59
    Period size: 6  Copynumber: 6.7  Consensus size: 6

       5711 TTCAAATCAA

                                                             
       5721 ATTTTG ATTTTG ATTTTG ATTTTG AAAATTTTG ATTTTG ATTT
          1 ATTTTG ATTTTG ATTTTG ATTTTG ---ATTTTG ATTTTG ATTT

       5764 ATGCTAAACC


Statistics
Matches: 34,  Mismatches: 0, Indels: 6
        0.85            0.00        0.15

Matches are distributed among these distances:
   6   28  0.82
   9    6  0.18

ACGTcount: A:0.23, C:0.00, G:0.14, T:0.63


Consensus pattern (6 bp):   
ATTTTG

Found at i:6090 original size:2 final size:2

Alignment explanation


    Indices: 6083--6123  Score: 82
    Period size: 2  Copynumber: 20.5  Consensus size: 2

       6073 TACAGTTTTA

                                                                         
       6083 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
          1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A

       6124 CACTACTAAT


Statistics
Matches: 39,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   39  1.00

ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49


Consensus pattern (2 bp):   
AT

Done.