Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01010411.1 Kokia drynarioides strain JFW-HI SEQ_125297, 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: 3352
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34


Found at i:1538 original size:20 final size:20

Alignment explanation


    Indices: 1513--1550  Score: 67
    Period size: 20  Copynumber: 1.9  Consensus size: 20

       1503 TATATATTCA

                        *       
       1513 TGAACATGTTCGTTTAATCG
          1 TGAACATGTTCGATTAATCG

                              
       1533 TGAACATGTTCGATTAAT
          1 TGAACATGTTCGATTAAT

       1551 TGAAATGAAC


Statistics
Matches: 17,  Mismatches: 1, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  20   17  1.00

ACGTcount: A:0.29, C:0.13, G:0.18, T:0.39


Consensus pattern (20 bp):   
TGAACATGTTCGATTAATCG

Found at i:1563 original size:23 final size:21

Alignment explanation


    Indices: 1512--1565  Score: 65
    Period size: 20  Copynumber: 2.5  Consensus size: 21

       1502 TTATATATTC

                         *       
       1512 ATGAACATGTTCGTTTAATCG
          1 ATGAACATGTTCGATTAATCG

                               * 
       1533 -TGAACATGTTCGATTAATTG
          1 ATGAACATGTTCGATTAATCG

                         
       1553 AAATGAACATGTT
          1 --ATGAACATGTT

       1566 TGTGAACATT


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

Matches are distributed among these distances:
  20   18  0.64
  23   10  0.36

ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37


Consensus pattern (21 bp):   
ATGAACATGTTCGATTAATCG

Found at i:2614 original size:15 final size:16

Alignment explanation


    Indices: 2594--2623  Score: 53
    Period size: 15  Copynumber: 1.9  Consensus size: 16

       2584 TAATAAATTA

                            
       2594 AAAGAAATTA-ATTTG
          1 AAAGAAATTACATTTG

                           
       2609 AAAGAAATTACATTT
          1 AAAGAAATTACATTT

       2624 TACTTTATTG


Statistics
Matches: 14,  Mismatches: 0, Indels: 1
        0.93            0.00        0.07

Matches are distributed among these distances:
  15   10  0.71
  16    4  0.29

ACGTcount: A:0.53, C:0.03, G:0.10, T:0.33


Consensus pattern (16 bp):   
AAAGAAATTACATTTG
Done.