Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01015541.1 Corchorus capsularis cultivar CVL-1 contig15562, 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: 2559
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32


Found at i:1056 original size:33 final size:33

Alignment explanation


    Indices: 992--1131  Score: 158
    Period size: 33  Copynumber: 4.2  Consensus size: 33

        982 CCGAGTCATT

                                  *   **     *
        992 TGGCCGGTTGTGGC-CGGGCATGTCCTTGTCGCG
          1 TGGCCGG-TGTGGCGCGGGCATCTCCAAGTCGCA

             *                                
       1025 TCGCCGGTGATGGC-CGGGCATCTCCAAGTCGCA
          1 TGGCCGGTG-TGGCGCGGGCATCTCCAAGTCGCA

                      *                      
       1058 TGGCCGGTGTTGCGCGGGCATCTCCAAGTCGCA
          1 TGGCCGGTGTGGCGCGGGCATCTCCAAGTCGCA

                      *    *                *
       1091 TGGCCGGTGTTGCGCAGGCATCTCCAAGTCGCG
          1 TGGCCGGTGTGGCGCGGGCATCTCCAAGTCGCA

               *    
       1124 TGGTCGGT
          1 TGGCCGGT

       1132 TACAAGTGCT


Statistics
Matches: 95,  Mismatches: 10, Indels: 4
        0.87            0.09        0.04

Matches are distributed among these distances:
  32    5  0.05
  33   90  0.95

ACGTcount: A:0.10, C:0.29, G:0.38, T:0.23


Consensus pattern (33 bp):   
TGGCCGGTGTGGCGCGGGCATCTCCAAGTCGCA

Found at i:1509 original size:19 final size:18

Alignment explanation


    Indices: 1485--1520  Score: 54
    Period size: 19  Copynumber: 1.9  Consensus size: 18

       1475 TGAAGATTTC

                               
       1485 TTGAAGATAATTTGAAGAT
          1 TTGAAGATAA-TTGAAGAT

                    *        
       1504 TTGAAGATCATTGAAGA
          1 TTGAAGATAATTGAAGA

       1521 ATTATTTCAA


Statistics
Matches: 16,  Mismatches: 1, Indels: 1
        0.89            0.06        0.06

Matches are distributed among these distances:
  18    7  0.44
  19    9  0.56

ACGTcount: A:0.42, C:0.03, G:0.22, T:0.33


Consensus pattern (18 bp):   
TTGAAGATAATTGAAGAT
Done.