Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01020144.1 Corchorus olitorius cultivar O-4 contig20177, 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: 7852
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.35


Found at i:167 original size:17 final size:17

Alignment explanation


    Indices: 141--173  Score: 57
    Period size: 17  Copynumber: 1.9  Consensus size: 17

        131 ATATTGTTTT

                 *           
        141 AAATATGAAAAAAAAAG
          1 AAATAGGAAAAAAAAAG

                            
        158 AAATAGGAAAAAAAAA
          1 AAATAGGAAAAAAAAA

        174 AGAACAATCA


Statistics
Matches: 15,  Mismatches: 1, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  17   15  1.00

ACGTcount: A:0.79, C:0.00, G:0.12, T:0.09


Consensus pattern (17 bp):   
AAATAGGAAAAAAAAAG

Found at i:2530 original size:17 final size:19

Alignment explanation


    Indices: 2510--2544  Score: 56
    Period size: 19  Copynumber: 1.9  Consensus size: 19

       2500 TGTTGCATGG

                               
       2510 TTTGAT-CT-GTTTTGATA
          1 TTTGATACTGGTTTTGATA

                              
       2527 TTTGATACTGGTTTTGAT
          1 TTTGATACTGGTTTTGAT

       2545 GTTGAATTGA


Statistics
Matches: 16,  Mismatches: 0, Indels: 2
        0.89            0.00        0.11

Matches are distributed among these distances:
  17    6  0.38
  18    2  0.12
  19    8  0.50

ACGTcount: A:0.17, C:0.06, G:0.20, T:0.57


Consensus pattern (19 bp):   
TTTGATACTGGTTTTGATA

Found at i:7811 original size:17 final size:19

Alignment explanation


    Indices: 7791--7825  Score: 56
    Period size: 19  Copynumber: 1.9  Consensus size: 19

       7781 TGTTGCATGG

                               
       7791 TTTGAT-CT-GTTTTGATA
          1 TTTGATACTGGTTTTGATA

                              
       7808 TTTGATACTGGTTTTGAT
          1 TTTGATACTGGTTTTGAT

       7826 GTTGAATTGA


Statistics
Matches: 16,  Mismatches: 0, Indels: 2
        0.89            0.00        0.11

Matches are distributed among these distances:
  17    6  0.38
  18    2  0.12
  19    8  0.50

ACGTcount: A:0.17, C:0.06, G:0.20, T:0.57


Consensus pattern (19 bp):   
TTTGATACTGGTTTTGATA

Done.