Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01001161.1 Corchorus capsularis cultivar CVL-1 contig01161, 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: 2485
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.32


Found at i:84 original size:33 final size:32

Alignment explanation


    Indices: 47--108  Score: 97
    Period size: 33  Copynumber: 1.9  Consensus size: 32

         37 CATGGTGCGG

                      *                      
         47 GTCGCAATCTGGACGCGACCCGCACCATGGTTC
          1 GTCGCAATCTAGACGCGACCCGC-CCATGGTTC

                        *                
         80 GTCGCAATCTAGTCGCGACCCGCCCATGG
          1 GTCGCAATCTAGACGCGACCCGCCCATGG

        109 CTAGGTCGCA


Statistics
Matches: 27,  Mismatches: 2, Indels: 1
        0.90            0.07        0.03

Matches are distributed among these distances:
  32    6  0.22
  33   21  0.78

ACGTcount: A:0.18, C:0.37, G:0.27, T:0.18


Consensus pattern (32 bp):   
GTCGCAATCTAGACGCGACCCGCCCATGGTTC

Found at i:117 original size:33 final size:33

Alignment explanation


    Indices: 46--118  Score: 94
    Period size: 33  Copynumber: 2.2  Consensus size: 33

         36 TCATGGTGCG

                       *                    *
         46 GGTCGCAATCTGGACGCGACCCGCACCATGGTT
          1 GGTCGCAATCTAGACGCGACCCGCACCATGGTA

            *            *                    
         79 CGTCGCAATCTAGTCGCGACCCGC-CCATGGCTA
          1 GGTCGCAATCTAGACGCGACCCGCACCATGG-TA

                   
        112 GGTCGCA
          1 GGTCGCA

        119 CGCGGATCGC


Statistics
Matches: 34,  Mismatches: 5, Indels: 2
        0.83            0.12        0.05

Matches are distributed among these distances:
  32    6  0.18
  33   28  0.82

ACGTcount: A:0.18, C:0.36, G:0.29, T:0.18


Consensus pattern (33 bp):   
GGTCGCAATCTAGACGCGACCCGCACCATGGTA

Found at i:1903 original size:2 final size:2

Alignment explanation


    Indices: 1896--1921  Score: 52
    Period size: 2  Copynumber: 13.0  Consensus size: 2

       1886 CAACATACAA

                                                  
       1896 AT AT AT AT AT AT AT AT AT AT AT AT AT
          1 AT AT AT AT AT AT AT AT AT AT AT AT AT

       1922 GTAATTATAT


Statistics
Matches: 24,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   24  1.00

ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50


Consensus pattern (2 bp):   
AT

Done.