Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01006889.1 Kokia drynarioides strain JFW-HI SEQ_121490, 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: 16012
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34

Warning! 32 characters in sequence are not A, C, G, or T


Found at i:1369 original size:30 final size:28

Alignment explanation


    Indices: 1329--1396  Score: 75
    Period size: 30  Copynumber: 2.4  Consensus size: 28

       1319 TTTAGAAAAA

                           **          * 
       1329 TTTT-AAAATTTTAACTTTTTTATATATT
          1 TTTTAAAAATTTTAAAATTTTT-TATAGT

                                          
       1357 TTTTAGAAAATTTTTAAAATTTTTTATAGT
          1 TTTTA-AAAA-TTTTAAAATTTTTTATAGT

                      
       1387 TTTTAAAAAT
          1 TTTTAAAAAT

       1397 ATAAATTTTG


Statistics
Matches: 34,  Mismatches: 3, Indels: 6
        0.79            0.07        0.14

Matches are distributed among these distances:
  28    5  0.15
  29    4  0.12
  30   14  0.41
  31   11  0.32

ACGTcount: A:0.37, C:0.01, G:0.03, T:0.59


Consensus pattern (28 bp):   
TTTTAAAAATTTTAAAATTTTTTATAGT

Found at i:7937 original size:3 final size:3

Alignment explanation


    Indices: 7929--7962  Score: 68
    Period size: 3  Copynumber: 11.3  Consensus size: 3

       7919 AACTCCTCAG

                                                         
       7929 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
          1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T

       7963 GTATTGGGTT


Statistics
Matches: 31,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   3   31  1.00

ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68


Consensus pattern (3 bp):   
TCT

Found at i:12086 original size:37 final size:38

Alignment explanation


    Indices: 12017--12090  Score: 105
    Period size: 37  Copynumber: 2.0  Consensus size: 38

      12007 ATCAATTCAG

                          *            *          
      12017 TGGTTGTCAATCGATGGTACAACAAAGTTGAAATTGAA
          1 TGGTTGTCAATCGAGGGTACAACAAAGCTGAAATTGAA

                         *     *                 
      12055 TGGTTGTCAAT-GGGGGTATAACAAAGCTGAAATTGA
          1 TGGTTGTCAATCGAGGGTACAACAAAGCTGAAATTGA

      12091 CTTCCTTGTT


Statistics
Matches: 32,  Mismatches: 4, Indels: 1
        0.86            0.11        0.03

Matches are distributed among these distances:
  37   21  0.66
  38   11  0.34

ACGTcount: A:0.35, C:0.09, G:0.27, T:0.28


Consensus pattern (38 bp):   
TGGTTGTCAATCGAGGGTACAACAAAGCTGAAATTGAA
Done.