Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01007415.1 Corchorus olitorius cultivar O-4 contig07440, 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, 620

Length: 1034
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.36


Found at i:274 original size:7 final size:7

Alignment explanation


    Indices: 262--332  Score: 51
    Period size: 7  Copynumber: 10.6  Consensus size: 7

        252 GTTTCATTTT

                   
        262 TTATATA
          1 TTATATA

                   
        269 TTATATA
          1 TTATATA

                  *
        276 -TATATT
          1 TTATATA

                   *
        282 TTCAT-TT
          1 TT-ATATA

              *   *
        289 TTTTATT
          1 TTATATA

                   
        296 TTATATA
          1 TTATATA

                   
        303 TTATATA
          1 TTATATA

                   
        310 -TA-ATA
          1 TTATATA

             *     
        315 TAATATA
          1 TTATATA

             *     
        322 TAATATA
          1 TTATATA

                
        329 TTAT
          1 TTAT

        333 TTTTTTTAAT


Statistics
Matches: 53,  Mismatches: 6, Indels: 10
        0.77            0.09        0.14

Matches are distributed among these distances:
   5    3  0.06
   6    9  0.17
   7   39  0.74
   8    2  0.04

ACGTcount: A:0.39, C:0.01, G:0.00, T:0.59


Consensus pattern (7 bp):   
TTATATA

Found at i:342 original size:17 final size:16

Alignment explanation


    Indices: 322--353  Score: 55
    Period size: 16  Copynumber: 1.9  Consensus size: 16

        312 ATATAATATA

                             
        322 TAATATATTATTTTTTT
          1 TAATATA-TATTTTTTT

                           
        339 TAATATATATTTTTT
          1 TAATATATATTTTTT

        354 ATTTTTTGTA


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

Matches are distributed among these distances:
  16    8  0.53
  17    7  0.47

ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69


Consensus pattern (16 bp):   
TAATATATATTTTTTT

Found at i:342 original size:24 final size:23

Alignment explanation


    Indices: 315--360  Score: 65
    Period size: 23  Copynumber: 2.0  Consensus size: 23

        305 ATATATAATA

                                    
        315 TAATATATAATATATTATTTTTTT
          1 TAATATAT-ATATATTATTTTTTT

                      * *         
        339 TAATATATATTTTTTATTTTTT
          1 TAATATATATATATTATTTTTT

        361 GTATACATTA


Statistics
Matches: 20,  Mismatches: 2, Indels: 1
        0.87            0.09        0.04

Matches are distributed among these distances:
  23   12  0.60
  24    8  0.40

ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67


Consensus pattern (23 bp):   
TAATATATATATATTATTTTTTT
Done.