Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01007006.1 Kokia drynarioides strain JFW-HI SEQ_121612, 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: 4480
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.34


Found at i:3904 original size:21 final size:20

Alignment explanation


    Indices: 3879--3917  Score: 51
    Period size: 20  Copynumber: 1.9  Consensus size: 20

       3869 AATGTCATGT

                       *         
       3879 TTCAAGAAATTTATTATATCC
          1 TTCAA-AAATTCATTATATCC

                 *            
       3900 TTCAATAATTCATTATAT
          1 TTCAAAAATTCATTATAT

       3918 ACATAAGTAT


Statistics
Matches: 16,  Mismatches: 2, Indels: 1
        0.84            0.11        0.05

Matches are distributed among these distances:
  20   11  0.69
  21    5  0.31

ACGTcount: A:0.38, C:0.13, G:0.03, T:0.46


Consensus pattern (20 bp):   
TTCAAAAATTCATTATATCC

Found at i:4326 original size:144 final size:145

Alignment explanation


    Indices: 4062--4329  Score: 391
    Period size: 144  Copynumber: 1.9  Consensus size: 145

       4052 CGCCCAGCGA

                                      *                                *     
       4062 TAGTCAGATAAACCTACAATATCAAATGTGAGCCCAACTCTAGTTGGATATACCAACGATATTTT
          1 TAGTCAGATAAACCTACAATATCAAAGGTGAGCCCAACTCTAGTTGGATATACCAACGAAATTTT

                *      *                                   *                 
       4127 GCGCTTAGCACTAGTCGGATAACTGACAAGTTGTGTGCCCAGCACTAGTCAGATAAACTAATGGA
         66 GCGCCTAGCACAAGTCGGATAACTGACAAGTTGTGTGCCCAGCACTAATCAGATAAACTAATGGA

                           
       4192 GGTTGTGGCCAACAC
        131 GGTTGTGGCCAACAC

                                             *  *                            
       4207 TAGTCAGATAAA-CTGACAA-ATCAAAGGTGA-TCCTACTCTAGTTGGATATACCAAC-AAATGT
          1 TAGTCAGATAAACCT-ACAATATCAAAGGTGAGCCCAACTCTAGTTGGATATACCAACGAAAT-T

                       *                  * *                             
       4268 TTGCGCCTAGCGCAAGTCGGATAAACTGACGATTTGTGTGCCCAGCACTAATCAGATAAACT
         64 TTGCGCCTAGCACAAGTCGGAT-AACTGACAAGTTGTGTGCCCAGCACTAATCAGATAAACT

       4330 GACGAATATA


Statistics
Matches: 110,  Mismatches: 10, Indels: 7
        0.87            0.08        0.06

Matches are distributed among these distances:
 142    3  0.03
 143   43  0.39
 144   48  0.44
 145   16  0.15

ACGTcount: A:0.33, C:0.21, G:0.20, T:0.25


Consensus pattern (145 bp):   
TAGTCAGATAAACCTACAATATCAAAGGTGAGCCCAACTCTAGTTGGATATACCAACGAAATTTT
GCGCCTAGCACAAGTCGGATAACTGACAAGTTGTGTGCCCAGCACTAATCAGATAAACTAATGGA
GGTTGTGGCCAACAC
Done.