Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01011997.1 Corchorus capsularis cultivar CVL-1 contig12018, 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: 24479
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33


Found at i:7643 original size:15 final size:15

Alignment explanation


    Indices: 7623--7652  Score: 60
    Period size: 15  Copynumber: 2.0  Consensus size: 15

       7613 TCTGAAACAG

                           
       7623 ATCGATTCTGGATTA
          1 ATCGATTCTGGATTA

                           
       7638 ATCGATTCTGGATTA
          1 ATCGATTCTGGATTA

       7653 GTTGATATCG


Statistics
Matches: 15,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  15   15  1.00

ACGTcount: A:0.27, C:0.13, G:0.20, T:0.40


Consensus pattern (15 bp):   
ATCGATTCTGGATTA

Found at i:15932 original size:3 final size:3

Alignment explanation


    Indices: 15924--15954  Score: 62
    Period size: 3  Copynumber: 10.3  Consensus size: 3

      15914 ATAATTAAAC

                                                     
      15924 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
          1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T

      15955 TAATTACTCA


Statistics
Matches: 28,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   3   28  1.00

ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68


Consensus pattern (3 bp):   
TCT

Found at i:18996 original size:19 final size:19

Alignment explanation


    Indices: 18967--19010  Score: 65
    Period size: 19  Copynumber: 2.4  Consensus size: 19

      18957 GATCAGACTC

                                
      18967 AAACT-AACTG-ACTCAAAA
          1 AAACTGAACTGAACTC-AAA

                               
      18985 AAACTGAACTGAACTCAAA
          1 AAACTGAACTGAACTCAAA

                   
      19004 AAACTGA
          1 AAACTGA

      19011 CTAAACCCCA


Statistics
Matches: 24,  Mismatches: 0, Indels: 3
        0.89            0.00        0.11

Matches are distributed among these distances:
  18    5  0.21
  19   15  0.62
  20    4  0.17

ACGTcount: A:0.55, C:0.20, G:0.09, T:0.16


Consensus pattern (19 bp):   
AAACTGAACTGAACTCAAA

Done.