Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01009257.1 Corchorus olitorius cultivar O-4 contig09285, 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, 645

Length: 1076
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34


Found at i:128 original size:10 final size:10

Alignment explanation


    Indices: 113--151  Score: 53
    Period size: 11  Copynumber: 3.8  Consensus size: 10

        103 ACCAATTGGG

                      
        113 TTTTCTAAGT
          1 TTTTCTAAGT

                       
        123 TTTTCTTAA-T
          1 TTTTC-TAAGT

                       
        133 TTTTCTAAGAT
          1 TTTTCTAAG-T

                    
        144 TTTTCTAA
          1 TTTTCTAA

        152 ACGGAGCCTG


Statistics
Matches: 26,  Mismatches: 0, Indels: 5
        0.84            0.00        0.16

Matches are distributed among these distances:
   9    3  0.12
  10   11  0.42
  11   12  0.46

ACGTcount: A:0.23, C:0.10, G:0.05, T:0.62


Consensus pattern (10 bp):   
TTTTCTAAGT

Found at i:145 original size:11 final size:11

Alignment explanation


    Indices: 113--151  Score: 55
    Period size: 10  Copynumber: 3.7  Consensus size: 11

        103 ACCAATTGGG

                       
        113 TTTTCTAAG-T
          1 TTTTCTAAGAT

                  *    
        123 TTTTCTTA-AT
          1 TTTTCTAAGAT

                       
        133 TTTTCTAAGAT
          1 TTTTCTAAGAT

                    
        144 TTTTCTAA
          1 TTTTCTAA

        152 ACGGAGCCTG


Statistics
Matches: 25,  Mismatches: 2, Indels: 3
        0.83            0.07        0.10

Matches are distributed among these distances:
  10   15  0.60
  11   10  0.40

ACGTcount: A:0.23, C:0.10, G:0.05, T:0.62


Consensus pattern (11 bp):   
TTTTCTAAGAT

Found at i:252 original size:18 final size:18

Alignment explanation


    Indices: 211--246  Score: 72
    Period size: 18  Copynumber: 2.0  Consensus size: 18

        201 AGCATTCTCA

                              
        211 AATTGAAAATATTAATCT
          1 AATTGAAAATATTAATCT

                              
        229 AATTGAAAATATTAATCT
          1 AATTGAAAATATTAATCT

        247 GGTTGATACC


Statistics
Matches: 18,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  18   18  1.00

ACGTcount: A:0.50, C:0.06, G:0.06, T:0.39


Consensus pattern (18 bp):   
AATTGAAAATATTAATCT
Done.