Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01003594.1 Corchorus capsularis cultivar CVL-1 contig03602, 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: 3145
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34


Found at i:486 original size:13 final size:13

Alignment explanation


    Indices: 468--492  Score: 50
    Period size: 13  Copynumber: 1.9  Consensus size: 13

        458 TTCAATGTTC

                         
        468 TAAATATTATTTA
          1 TAAATATTATTTA

                        
        481 TAAATATTATTT
          1 TAAATATTATTT

        493 GAAATTCCAA


Statistics
Matches: 12,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  13   12  1.00

ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56


Consensus pattern (13 bp):   
TAAATATTATTTA

Found at i:1099 original size:32 final size:32

Alignment explanation


    Indices: 1058--1153  Score: 149
    Period size: 32  Copynumber: 3.0  Consensus size: 32

       1048 AATGATGCCA

                                    *       
       1058 ACATAAATTGGTATAGTTAAATACTCTCATGT
          1 ACATAAATTGGTATAGTTAAATACACTCATGT

                        *                  *
       1090 ACATAAATTGGTGTAGTTAAATACACTCATGG
          1 ACATAAATTGGTATAGTTAAATACACTCATGT

                *                           
       1122 ACATTAATTGGTATAGTTAAATACACT-ATGT
          1 ACATAAATTGGTATAGTTAAATACACTCATGT

             
       1153 A
          1 A

       1154 TGGGTAAAGA


Statistics
Matches: 58,  Mismatches: 6, Indels: 1
        0.89            0.09        0.02

Matches are distributed among these distances:
  31    4  0.07
  32   54  0.93

ACGTcount: A:0.39, C:0.11, G:0.15, T:0.35


Consensus pattern (32 bp):   
ACATAAATTGGTATAGTTAAATACACTCATGT

Found at i:3114 original size:2 final size:2

Alignment explanation


    Indices: 3109--3145  Score: 74
    Period size: 2  Copynumber: 18.5  Consensus size: 2

       3099 ACACACACAC

                                                                   
       3109 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 A


Statistics
Matches: 35,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   35  1.00

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


Consensus pattern (2 bp):   
AT

Done.