Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01011188.1 Corchorus capsularis cultivar CVL-1 contig11209, 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: 3983
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38


Found at i:1443 original size:30 final size:29

Alignment explanation


    Indices: 1376--1446  Score: 79
    Period size: 29  Copynumber: 2.4  Consensus size: 29

       1366 ACACTGAACC

                                    **** 
       1376 GTCAAATAAGCCCCTGAACTATTATTTCA
          1 GTCAAATAAGCCCCTGAACTATTAAAAAA

             *                  *         
       1405 GCCAAATAAGCCCCTGAACTCTTAAAAAAA
          1 GTCAAATAAGCCCCTGAACTATT-AAAAAA

                        
       1435 GTCAAATAAGCC
          1 GTCAAATAAGCC

       1447 ATGTTGCCAA


Statistics
Matches: 34,  Mismatches: 7, Indels: 1
        0.81            0.17        0.02

Matches are distributed among these distances:
  29   21  0.62
  30   13  0.38

ACGTcount: A:0.41, C:0.25, G:0.11, T:0.23


Consensus pattern (29 bp):   
GTCAAATAAGCCCCTGAACTATTAAAAAA

Found at i:3150 original size:118 final size:119

Alignment explanation


    Indices: 2954--3186  Score: 396
    Period size: 118  Copynumber: 2.0  Consensus size: 119

       2944 CAATCAATAA

                                                                *      *     
       2954 ATTGGTTGATTAATAAGGCCTTAACGGATTGTTCAAAAAAAAAAGCCTTAATTGACCGAGCCTTA
          1 ATTGGTTGATTAATAAGGCCTTAACGGATTGTTCAAAAAAAAAAGCCTTAATGGACCGAACCTTA

                    *                                             
       3019 ATTAACAAGCTTTGGCCGATTTGCTCCAAAATTATCAATAAATTTGTCAATTTT
         66 ATTAACAAACTTTGGCCGATTTGCTCCAAAATTATCAATAAATTTGTCAATTTT

                            *                          *                     
       3073 ATTGGTTGATTAATAATGCCTTAACGGATTGTTC-AAAAAAAAGGCCTTAATGGACCGAACCTTA
          1 ATTGGTTGATTAATAAGGCCTTAACGGATTGTTCAAAAAAAAAAGCCTTAATGGACCGAACCTTA

            *             *                                   
       3137 GTTAACAAACTTTGTCCGATTTGCTCCAAAATTATCAATAAATTTGTCAA
         66 ATTAACAAACTTTGGCCGATTTGCTCCAAAATTATCAATAAATTTGTCAA

       3187 CTTCTATCTC


Statistics
Matches: 107,  Mismatches: 7, Indels: 1
        0.93            0.06        0.01

Matches are distributed among these distances:
 118   74  0.69
 119   33  0.31

ACGTcount: A:0.36, C:0.16, G:0.15, T:0.33


Consensus pattern (119 bp):   
ATTGGTTGATTAATAAGGCCTTAACGGATTGTTCAAAAAAAAAAGCCTTAATGGACCGAACCTTA
ATTAACAAACTTTGGCCGATTTGCTCCAAAATTATCAATAAATTTGTCAATTTT
Done.