Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01023181.1 Corchorus olitorius cultivar O-4 contig23214, 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: 18391
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.31


Found at i:7666 original size:22 final size:22

Alignment explanation


    Indices: 7640--7681  Score: 66
    Period size: 22  Copynumber: 1.9  Consensus size: 22

       7630 GTCATTTTAT

                  *     *         
       7640 AATTCACTTTTGGCATTTAGTA
          1 AATTCAATTTTGACATTTAGTA

                                
       7662 AATTCAATTTTGACATTTAG
          1 AATTCAATTTTGACATTTAG

       7682 CATAGCTTGT


Statistics
Matches: 18,  Mismatches: 2, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
  22   18  1.00

ACGTcount: A:0.31, C:0.12, G:0.12, T:0.45


Consensus pattern (22 bp):   
AATTCAATTTTGACATTTAGTA

Found at i:13139 original size:26 final size:25

Alignment explanation


    Indices: 13097--13145  Score: 71
    Period size: 26  Copynumber: 1.9  Consensus size: 25

      13087 TGTCCCTCTG

                        *            
      13097 AAAAAAAAAGAGCGTTAGTAACCTC
          1 AAAAAAAAAGAGAGTTAGTAACCTC

                       *            
      13122 AAAAGAAAAAGGGAGTTAGTAACC
          1 AAAA-AAAAAGAGAGTTAGTAACC

      13146 CCTAAATCAT


Statistics
Matches: 21,  Mismatches: 2, Indels: 1
        0.88            0.08        0.04

Matches are distributed among these distances:
  25    4  0.19
  26   17  0.81

ACGTcount: A:0.53, C:0.12, G:0.20, T:0.14


Consensus pattern (25 bp):   
AAAAAAAAAGAGAGTTAGTAACCTC

Found at i:17020 original size:21 final size:21

Alignment explanation


    Indices: 16980--17025  Score: 58
    Period size: 21  Copynumber: 2.2  Consensus size: 21

      16970 ATAAAACAAT

                           *     
      16980 TAAAAACAAAAGCAATTAAAC
          1 TAAAAACAAAAGCAAGTAAAC

                                 *
      17001 TAAAAAC-AAAGCAAAGTAAAT
          1 TAAAAACAAAAGC-AAGTAAAC

                
      17022 TAAA
          1 TAAA

      17026 TCTAGATTAT


Statistics
Matches: 22,  Mismatches: 2, Indels: 2
        0.85            0.08        0.08

Matches are distributed among these distances:
  20    5  0.23
  21   17  0.77

ACGTcount: A:0.67, C:0.11, G:0.07, T:0.15


Consensus pattern (21 bp):   
TAAAAACAAAAGCAAGTAAAC
Done.