Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01009111.1 Corchorus capsularis cultivar CVL-1 contig09132, 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: 8727
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32


Found at i:3317 original size:70 final size:70

Alignment explanation


    Indices: 3243--3409  Score: 235
    Period size: 70  Copynumber: 2.4  Consensus size: 70

       3233 TATTTCATGA

                  *                                *                         
       3243 CATTCAGCACTTGGGGACTCCAACAACCCCTTCATCATTTAACAGTTGGGTACTCCAACAACCCC
          1 CATTCAACACTTGGGGACTCCAACAACCCCTTCATCATTCAACAGTTGGGTACTCCAACAACCCC

                 
       3308 TTCAT
         66 TTCAT

                                *                                    *    ***
       3313 CATTCAACACTTGGGGACTCTAACAACCCCTTCATCATTCAACAGTTGGGTACTCCAGCAACTTA
          1 CATTCAACACTTGGGGACTCCAACAACCCCTTCATCATTCAACAGTTGGGTACTCCAACAACCCC

               * 
       3378 TTCTT
         66 TTCAT

                   *        *  *       
       3383 CATTCAATACTTGGGGGCTTCAACAAC
          1 CATTCAACACTTGGGGACTCCAACAAC

       3410 GAACATTTCA


Statistics
Matches: 85,  Mismatches: 12, Indels: 0
        0.88            0.12        0.00

Matches are distributed among these distances:
  70   85  1.00

ACGTcount: A:0.28, C:0.31, G:0.14, T:0.28


Consensus pattern (70 bp):   
CATTCAACACTTGGGGACTCCAACAACCCCTTCATCATTCAACAGTTGGGTACTCCAACAACCCC
TTCAT

Found at i:3397 original size:35 final size:35

Alignment explanation


    Indices: 3243--3397  Score: 193
    Period size: 35  Copynumber: 4.4  Consensus size: 35

       3233 TATTTCATGA

                  *        *                   
       3243 CATTCAGCACTTGGGGACTCCAACAACCCCTTCAT
          1 CATTCAACACTTGGGTACTCCAACAACCCCTTCAT

                *    *                         
       3278 CATTTAACAGTTGGGTACTCCAACAACCCCTTCAT
          1 CATTCAACACTTGGGTACTCCAACAACCCCTTCAT

                           *    *              
       3313 CATTCAACACTTGGGGACTCTAACAACCCCTTCAT
          1 CATTCAACACTTGGGTACTCCAACAACCCCTTCAT

                     *            *    ***   * 
       3348 CATTCAACAGTTGGGTACTCCAGCAACTTATTCTT
          1 CATTCAACACTTGGGTACTCCAACAACCCCTTCAT

                   *       
       3383 CATTCAATACTTGGG
          1 CATTCAACACTTGGG

       3398 GGCTTCAACA


Statistics
Matches: 102,  Mismatches: 18, Indels: 0
        0.85            0.15        0.00

Matches are distributed among these distances:
  35  102  1.00

ACGTcount: A:0.27, C:0.31, G:0.14, T:0.28


Consensus pattern (35 bp):   
CATTCAACACTTGGGTACTCCAACAACCCCTTCAT
Done.