Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01014015.1 Corchorus capsularis cultivar CVL-1 contig14036, 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: 10555
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.35


Found at i:1354 original size:12 final size:12

Alignment explanation


    Indices: 1334--1364  Score: 53
    Period size: 12  Copynumber: 2.6  Consensus size: 12

       1324 GCTATATGGA

                        
       1334 AAAGCACATCTT
          1 AAAGCACATCTT

                *       
       1346 AAAGTACATCTT
          1 AAAGCACATCTT

                   
       1358 AAAGCAC
          1 AAAGCAC

       1365 CATGCATCCA


Statistics
Matches: 17,  Mismatches: 2, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  12   17  1.00

ACGTcount: A:0.45, C:0.23, G:0.10, T:0.23


Consensus pattern (12 bp):   
AAAGCACATCTT

Found at i:2885 original size:29 final size:30

Alignment explanation


    Indices: 2809--2889  Score: 87
    Period size: 32  Copynumber: 2.7  Consensus size: 30

       2799 AACGGCTAAA

                 *       *                 
       2809 TAGCCCCTTTGCCCCCTGAACTTTGCAAATT
          1 TAGCCACTTTGCCTCCTGAACTTT-CAAATT

                                            
       2840 TAGGCCA-TATTGCCTCCTGAACTTT-AAATT
          1 TA-GCCACT-TTGCCTCCTGAACTTTCAAATT

                                 
       2870 GT-GCCACTTTGCCTCCTGAA
          1 -TAGCCACTTTGCCTCCTGAA

       2890 TTTGTAAAAT


Statistics
Matches: 44,  Mismatches: 2, Indels: 10
        0.79            0.04        0.18

Matches are distributed among these distances:
  29   16  0.36
  30    6  0.14
  31    4  0.09
  32   18  0.41

ACGTcount: A:0.21, C:0.31, G:0.15, T:0.33


Consensus pattern (30 bp):   
TAGCCACTTTGCCTCCTGAACTTTCAAATT
Done.