Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01015197.1 Corchorus capsularis cultivar CVL-1 contig15218, 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: 7683
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30


Found at i:550 original size:22 final size:22

Alignment explanation


    Indices: 511--565  Score: 76
    Period size: 22  Copynumber: 2.5  Consensus size: 22

        501 AAAGTTACGA

                      *  *        
        511 GCAATCAAG-CAATATTTACAG
          1 GCAATCAAGTGAAGATTTACAG

                 *                
        532 GCAATTAAGTGAAGATTTACAG
          1 GCAATCAAGTGAAGATTTACAG

                        
        554 GCAATCAAGTGA
          1 GCAATCAAGTGA

        566 GACGAATATA


Statistics
Matches: 29,  Mismatches: 4, Indels: 1
        0.85            0.12        0.03

Matches are distributed among these distances:
  21    8  0.28
  22   21  0.72

ACGTcount: A:0.42, C:0.15, G:0.20, T:0.24


Consensus pattern (22 bp):   
GCAATCAAGTGAAGATTTACAG

Found at i:1265 original size:2 final size:2

Alignment explanation


    Indices: 1258--1286  Score: 58
    Period size: 2  Copynumber: 14.5  Consensus size: 2

       1248 TATAGTGTAT

                                                       
       1258 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T

       1287 TATGATAGAG


Statistics
Matches: 27,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   27  1.00

ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52


Consensus pattern (2 bp):   
TA

Found at i:3111 original size:2 final size:2

Alignment explanation


    Indices: 3104--3129  Score: 52
    Period size: 2  Copynumber: 13.0  Consensus size: 2

       3094 TCCAATCTTA

                                                  
       3104 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

       3130 TCTCTCCTAG


Statistics
Matches: 24,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   24  1.00

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


Consensus pattern (2 bp):   
AT

Done.