Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01015152.1 Corchorus capsularis cultivar CVL-1 contig15173, 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: 4655
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34


Found at i:1397 original size:43 final size:43

Alignment explanation


    Indices: 1350--1438  Score: 133
    Period size: 43  Copynumber: 2.1  Consensus size: 43

       1340 AAATAAGCAT

                                   *      *  * *       
       1350 ATCTTCTCTCATTTAGTATCTAATGTAACTTGATTTTGGAAGA
          1 ATCTTCTCTCATTTAGTATCTAACGTAACTCGACTCTGGAAGA

                             *                         
       1393 ATCTTCTCTCATTTAGTGTCTAACGTAACTCGACTCTGGAAGA
          1 ATCTTCTCTCATTTAGTATCTAACGTAACTCGACTCTGGAAGA

               
       1436 ATC
          1 ATC

       1439 GAACCCAAAT


Statistics
Matches: 41,  Mismatches: 5, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  43   41  1.00

ACGTcount: A:0.27, C:0.19, G:0.15, T:0.39


Consensus pattern (43 bp):   
ATCTTCTCTCATTTAGTATCTAACGTAACTCGACTCTGGAAGA

Found at i:3517 original size:2 final size:2

Alignment explanation


    Indices: 3510--3544  Score: 70
    Period size: 2  Copynumber: 17.5  Consensus size: 2

       3500 TGCGATTGTC

                                                                
       3510 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 A

       3545 AAAGGTTCCG


Statistics
Matches: 33,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   33  1.00

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


Consensus pattern (2 bp):   
AT

Found at i:4632 original size:1 final size:1

Alignment explanation


    Indices: 4626--4655  Score: 60
    Period size: 1  Copynumber: 30.0  Consensus size: 1

       4616 CCTTGCTCTG

                                          
       4626 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
          1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT


Statistics
Matches: 29,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   1   29  1.00

ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00


Consensus pattern (1 bp):   
T

Done.