Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01011831.1 Kokia drynarioides strain JFW-HI SEQ_126827, 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: 4590
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.35

Warning! 2 characters in sequence are not A, C, G, or T


Found at i:1491 original size:51 final size:52

Alignment explanation


    Indices: 1430--1567  Score: 135
    Period size: 50  Copynumber: 2.7  Consensus size: 52

       1420 TGCATAACTT

                                          *                       
       1430 GATTTAATGATGCAAACTTTAACTAACATGGGAGTTACATAATGCATG--ATAG
          1 GATTT-ATGATGCAAACTTTAACTAACATGAGAGTTACATAATGCATGTCAT-G

                         *    *       *           *             *
       1482 GATTTATGATGCATA-TTAAACTAACGTGTA-AGTTACTTAATGCATGTCATT
          1 GATTTATGATGCAAACTTTAACTAACATG-AGAGTTACATAATGCATGTCATG

                         *                       
       1533 G-TTTATGATGCAGAC-TTAACTAATCATGAGAGTTA
          1 GATTTATGATGCAAACTTTAACTAA-CATGAGAGTTA

       1568 ATGGATGTCA


Statistics
Matches: 71,  Mismatches: 9, Indels: 13
        0.76            0.10        0.14

Matches are distributed among these distances:
  50   46  0.65
  51   18  0.25
  52    7  0.10

ACGTcount: A:0.36, C:0.12, G:0.18, T:0.35


Consensus pattern (52 bp):   
GATTTATGATGCAAACTTTAACTAACATGAGAGTTACATAATGCATGTCATG

Found at i:1794 original size:17 final size:17

Alignment explanation


    Indices: 1763--1795  Score: 50
    Period size: 17  Copynumber: 1.9  Consensus size: 17

       1753 CAAACACTTA

                             
       1763 TTAAACTAAAATAAAAC
          1 TTAAACTAAAATAAAAC

                             
       1780 TTAAA-TAAAATTAAAA
          1 TTAAACTAAAA-TAAAA

       1796 AGTCCTTAAA


Statistics
Matches: 15,  Mismatches: 0, Indels: 2
        0.88            0.00        0.12

Matches are distributed among these distances:
  16    5  0.33
  17   10  0.67

ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27


Consensus pattern (17 bp):   
TTAAACTAAAATAAAAC
Done.