Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01000250.1 Kokia drynarioides strain JFW-HI SEQ_110985, 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: 4467
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37


Found at i:1574 original size:14 final size:15

Alignment explanation


    Indices: 1555--1584  Score: 53
    Period size: 15  Copynumber: 2.1  Consensus size: 15

       1545 GAAGGGAGAC

                           
       1555 TTTGTTT-TTTCTTT
          1 TTTGTTTGTTTCTTT

                           
       1569 TTTGTTTGTTTCTTT
          1 TTTGTTTGTTTCTTT

             
       1584 T
          1 T

       1585 ATTAGATCTT


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

Matches are distributed among these distances:
  14    7  0.47
  15    8  0.53

ACGTcount: A:0.00, C:0.07, G:0.10, T:0.83


Consensus pattern (15 bp):   
TTTGTTTGTTTCTTT

Found at i:3060 original size:74 final size:74

Alignment explanation


    Indices: 2935--3078  Score: 218
    Period size: 74  Copynumber: 1.9  Consensus size: 74

       2925 AAATCATCAA

                     *                                                       
       2935 CAATTGTTTTCATTTTCATGTTTTTTTTTTTTCTCTAAGTACCCATTTGCATTAAATAAAAAAAA
          1 CAATTGTTTACATTTTCATG-TTTTTTTTTTTCTCTAAGTACCCATTTGCATTAAATAAAAAAAA

                      
       3000 CAAAAATCTT
         65 CAAAAATCTT

                                              * *                       *    
       3010 CAATTGTTTACATTTTCAATG-TTTTTTTTTTCTTTGAGTACCCATTTGCATTAAATAAATAAAA
          1 CAATTGTTTACATTTTC-ATGTTTTTTTTTTTCTCTAAGTACCCATTTGCATTAAATAAAAAAAA

            *    
       3074 GAAAA
         65 CAAAA

       3079 CTTATAGGGT


Statistics
Matches: 63,  Mismatches: 5, Indels: 3
        0.89            0.07        0.04

Matches are distributed among these distances:
  74   44  0.70
  75   16  0.25
  76    3  0.05

ACGTcount: A:0.34, C:0.13, G:0.07, T:0.46


Consensus pattern (74 bp):   
CAATTGTTTACATTTTCATGTTTTTTTTTTTCTCTAAGTACCCATTTGCATTAAATAAAAAAAAC
AAAAATCTT
Done.