Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01001497.1 Corchorus olitorius cultivar O-4 contig01497, 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: 1882
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.38


Found at i:367 original size:22 final size:22

Alignment explanation


    Indices: 320--368  Score: 55
    Period size: 22  Copynumber: 2.2  Consensus size: 22

        310 AGGTTACTTA

                       *         *
        320 TTTTTTTTATAGCATTATTATG
          1 TTTTTTTTATACCATTATTATC

                          *        
        342 TTTTTTTTATATCCTTTATTA-C
          1 TTTTTTTTATA-CCATTATTATC

                 
        364 TTTTT
          1 TTTTT

        369 CAGTACCTTA


Statistics
Matches: 23,  Mismatches: 3, Indels: 2
        0.82            0.11        0.07

Matches are distributed among these distances:
  22   16  0.70
  23    7  0.30

ACGTcount: A:0.18, C:0.08, G:0.04, T:0.69


Consensus pattern (22 bp):   
TTTTTTTTATACCATTATTATC

Found at i:368 original size:23 final size:22

Alignment explanation


    Indices: 320--362  Score: 59
    Period size: 22  Copynumber: 1.9  Consensus size: 22

        310 AGGTTACTTA

                       *          
        320 TTTTTTTTATAGCATTATTATG
          1 TTTTTTTTATACCATTATTATG

                          *      
        342 TTTTTTTTATATCCTTTATTA
          1 TTTTTTTTATA-CCATTATTA

        363 CTTTTTCAGT


Statistics
Matches: 18,  Mismatches: 2, Indels: 1
        0.86            0.10        0.05

Matches are distributed among these distances:
  22   11  0.61
  23    7  0.39

ACGTcount: A:0.21, C:0.07, G:0.05, T:0.67


Consensus pattern (22 bp):   
TTTTTTTTATACCATTATTATG

Found at i:1326 original size:18 final size:19

Alignment explanation


    Indices: 1303--1353  Score: 59
    Period size: 20  Copynumber: 2.6  Consensus size: 19

       1293 AATGTTGAAG

                         * *   
       1303 TTATAACCTTA-ATTTTTT
          1 TTATAACCTTATAGTCTTT

                                
       1321 TTATAACCTCTATAGTCTTT
          1 TTATAACCT-TATAGTCTTT

                         
       1341 TTAGTAACCTTAT
          1 TTA-TAACCTTAT

       1354 TAGATGTGAA


Statistics
Matches: 28,  Mismatches: 2, Indels: 4
        0.82            0.06        0.12

Matches are distributed among these distances:
  18    9  0.32
  19    2  0.07
  20   11  0.39
  21    6  0.21

ACGTcount: A:0.27, C:0.16, G:0.04, T:0.53


Consensus pattern (19 bp):   
TTATAACCTTATAGTCTTT
Done.