Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01000366.1 Kokia drynarioides strain JFW-HI SEQ_111153, 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, 791

Length: 1319
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38


Found at i:741 original size:20 final size:22

Alignment explanation


    Indices: 706--747  Score: 61
    Period size: 20  Copynumber: 2.0  Consensus size: 22

        696 TAACAAATGA

                             *    
        706 TTTTAAAATTATTAAAATTATT
          1 TTTTAAAATTATTAAAAATATT

                                  
        728 TTTTAAAA-TA-TAAAAATATT
          1 TTTTAAAATTATTAAAAATATT

        748 AAAATTGTTT


Statistics
Matches: 19,  Mismatches: 1, Indels: 2
        0.86            0.05        0.09

Matches are distributed among these distances:
  20    9  0.47
  21    2  0.11
  22    8  0.42

ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50


Consensus pattern (22 bp):   
TTTTAAAATTATTAAAAATATT

Found at i:751 original size:29 final size:31

Alignment explanation


    Indices: 709--781  Score: 105
    Period size: 29  Copynumber: 2.4  Consensus size: 31

        699 CAAATGATTT

                                           
        709 TAAAATTATTAAAATT-ATTTTTTAAAAT-A
          1 TAAAATTATTAAAATTGATTTTTTAAAATAA

                 *           *      *      
        738 TAAAAATATTAAAATTGTTTTTTTGAAATAA
          1 TAAAATTATTAAAATTGATTTTTTAAAATAA

                         
        769 TAAAATTATTAAA
          1 TAAAATTATTAAA

        782 TAATTTTAAT


Statistics
Matches: 38,  Mismatches: 4, Indels: 2
        0.86            0.09        0.05

Matches are distributed among these distances:
  29   15  0.39
  30   10  0.26
  31   13  0.34

ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45


Consensus pattern (31 bp):   
TAAAATTATTAAAATTGATTTTTTAAAATAA

Found at i:1011 original size:89 final size:91

Alignment explanation


    Indices: 856--1023  Score: 261
    Period size: 89  Copynumber: 1.9  Consensus size: 91

        846 TTTTCTTAAC

                                      *                                      
        856 AACCAAACACCAAAAAAATTTGTTTTTCTTACATAATCCCATGCTTTCTCATTTTCTTTCCTGAA
          1 AACCAAACACC-AAAAAATTTGTTTTCCTTACATAATCCCATGCTTTCTCATTTTCTTTCCTGAA

                *  *                   
        921 AACCTCCTAAATTCACCCTAAACCCTA
         65 AACCCCCAAAATTCACCCTAAACCCTA

                                                 *                           
        948 AACCAAACACC-AAAAATTT-TTTTCCTTACATAATCTCATGCTTTCTCATTTTCTTT-CTCGAA
          1 AACCAAACACCAAAAAATTTGTTTTCCTTACATAATCCCATGCTTTCTCATTTTCTTTCCT-GAA

                          
       1010 AACCCCCAAAATTC
         65 AACCCCCAAAATTC

       1024 CTCCATTTTT


Statistics
Matches: 71,  Mismatches: 4, Indels: 5
        0.89            0.05        0.06

Matches are distributed among these distances:
  88    2  0.03
  89   50  0.70
  90    8  0.11
  92   11  0.15

ACGTcount: A:0.33, C:0.29, G:0.03, T:0.35


Consensus pattern (91 bp):   
AACCAAACACCAAAAAATTTGTTTTCCTTACATAATCCCATGCTTTCTCATTTTCTTTCCTGAAA
ACCCCCAAAATTCACCCTAAACCCTA
Done.