Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01016319.1 Corchorus capsularis cultivar CVL-1 contig16340, 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: 5839
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29


Found at i:1046 original size:33 final size:33

Alignment explanation


    Indices: 955--1095  Score: 144
    Period size: 33  Copynumber: 4.3  Consensus size: 33

        945 AGCACTTGTG

                               *       *      
        955 ACCGGCCACGCGACTTGGAGATGCCCGACCATC-
          1 ACCGGCCACGCGACTTGGACATGCCCGGCCA-CA

                               **             
        988 ACCGGCCACGCGACTTGGAGTTGCCCGGCCATC-
          1 ACCGGCCACGCGACTTGGACATGCCCGGCCA-CA

                          **          *      
       1021 ACCGGCCACGCGACAAGGACATGCCCAGCCACA
          1 ACCGGCCACGCGACTTGGACATGCCCGGCCACA

                       *    *  *              
       1054 ACCGGCCAAC-TGACTCGGCCATGCCCGGCCACA
          1 ACCGGCC-ACGCGACTTGGACATGCCCGGCCACA

                     
       1087 ACCGGCCAC
          1 ACCGGCCAC

       1096 ATGATCCTTT


Statistics
Matches: 94,  Mismatches: 12, Indels: 5
        0.85            0.11        0.05

Matches are distributed among these distances:
  32    3  0.03
  33   89  0.95
  34    2  0.02

ACGTcount: A:0.22, C:0.43, G:0.26, T:0.09


Consensus pattern (33 bp):   
ACCGGCCACGCGACTTGGACATGCCCGGCCACA

Found at i:3373 original size:58 final size:58

Alignment explanation


    Indices: 3283--3400  Score: 236
    Period size: 58  Copynumber: 2.0  Consensus size: 58

       3273 CAACCAAACG

                                                                      
       3283 TGGCTGCTATGTTGCAAGCTCTAATGCAACGTTTGGACAATATGGATACTAAATTCGA
          1 TGGCTGCTATGTTGCAAGCTCTAATGCAACGTTTGGACAATATGGATACTAAATTCGA

                                                                      
       3341 TGGCTGCTATGTTGCAAGCTCTAATGCAACGTTTGGACAATATGGATACTAAATTCGA
          1 TGGCTGCTATGTTGCAAGCTCTAATGCAACGTTTGGACAATATGGATACTAAATTCGA

              
       3399 TG
          1 TG

       3401 CCTTGGCCGA


Statistics
Matches: 60,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  58   60  1.00

ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31


Consensus pattern (58 bp):   
TGGCTGCTATGTTGCAAGCTCTAATGCAACGTTTGGACAATATGGATACTAAATTCGA
Done.