Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NC_070303

Parameters: 2 7 7 80 10 50 500

Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 500

Length: 194106
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28


Found at i:140487 original size:24 final size:24

Alignment explanation


    Indices: 140431--140491  Score: 68
    Period size: 24  Copynumber: 2.5  Consensus size: 24

     140421 CTGGCTACTC

                  *   *     *       
     140431 ACTCAGATGAGCTTCCTACTACGT
          1 ACTCAGCTGAACTTCCAACTACGT

                                  * 
     140455 ACTCAGCTGAACTTCCAACTACTT
          1 ACTCAGCTGAACTTCCAACTACGT

               **        
     140479 ACTTGGCTGAACT
          1 ACTCAGCTGAACT

     140492 AGCAGCCTCA


Statistics
Matches: 31,  Mismatches: 6, Indels: 0
        0.84            0.16        0.00

Matches are distributed among these distances:
  24   31  1.00

ACGTcount: A:0.26, C:0.30, G:0.15, T:0.30


Consensus pattern (24 bp):   
ACTCAGCTGAACTTCCAACTACGT

Left flanking sequence: Indices 139931 -- 140430
AGGGGCTAGACATAAGAGGAGATATGAGGCAATAAATGGGGGATCTGCCCTTTCATACTCCTTCT
TTGGGCGGGTTAGCCCCGGTGTTTAGAAGTCTTCGACCGTACCATACCTCCCTTCACCGAATTTA
TATCTTTCTTGAGACCACATTCACAACTAACTCGGCTGCTGATCCAAAGACCAACCACCCGCCTG
CGGCTCCTTTCTTTCTTAATGCTCCGTTAAGCGAGAAAGAAGGAAGAACGATTCATAGCCTCCGG
CGCTTAGTCAAAACCTACTTTCATTTTCTTGCTAGGGGTTATTTCAAGGAGTAATCGAGCCTAAC
TTCAAAAGAGTCGATCCCATTTTTTTCTTTTTTGCTGGAATGCCTGGAGGGGAGGCCTTATCATA
TTTAGCTAGGATGCTGCGAACAAATCTAGCAAAAAAAAAGGTTTCTATCACAGCGCCTATTCCGG
CTTTTCGAAAAATGGCTTCTACCGCAGCACCTGATCTGGCTACTC


Right flanking sequence: Indices 140492 -- 140991
AGCAGCCTCAGCTAACGAACTAGCTACCGTGACTGACGAACTAACAACTTCGGCTAACGAGCTAG
CACCTTGGCTAACTCCAATTCTAGAAAGGGATGCATTCCCGTCCAATCACCGAACCCGGAAAGAG
GACTTCCAAGAGCCTAACTCGGCGGGCAACAATAACCGCTTAGCCTCTATTAGCGGAATAGCCCG
GGAAGCAGACGAAGACTACGGAGTCGAATACCCTAATTCAAGATCGGATATAGGGCAGCCCCTCA
CTCCCGGACATCAGTAGCTCCTAAAGCAAAGGAAGAGGTTATTCATAGCTCGACCAATAGGGAGA
GGAATGCCAGACCCAACTTCTCGCACATATTATAAGGCGGCAGAGAACTGGACCGGGTGAAGAAT
GAAAAACGTCCACTAACGCCCCCGGGATAAGATCTTTTTTAGATCAGCCGCTCTCTGGAGAATTG
CATTGCCGCCGCATATAGCATGGGAAATCTGGTTAGCAATAAACC



Found at i:140551 original size:21 final size:20

Alignment explanation


    Indices: 140527--140569  Score: 50
    Period size: 21  Copynumber: 2.1  Consensus size: 20

     140517 ACCGTGACTG

                                 
     140527 ACGAACTAACAACTTCGGCTA
          1 ACGAACTAACAACTT-GGCTA

                *   *  *        
     140548 ACGAGCTAGCACCTTGGCTA
          1 ACGAACTAACAACTTGGCTA

              
     140568 AC
          1 AC

     140570 TCCAATTCTA


Statistics
Matches: 19,  Mismatches: 3, Indels: 1
        0.83            0.13        0.04

Matches are distributed among these distances:
  20    7  0.37
  21   12  0.63

ACGTcount: A:0.33, C:0.30, G:0.19, T:0.19


Consensus pattern (20 bp):   
ACGAACTAACAACTTGGCTA

Left flanking sequence: Indices 140027 -- 140526
TTCGACCGTACCATACCTCCCTTCACCGAATTTATATCTTTCTTGAGACCACATTCACAACTAAC
TCGGCTGCTGATCCAAAGACCAACCACCCGCCTGCGGCTCCTTTCTTTCTTAATGCTCCGTTAAG
CGAGAAAGAAGGAAGAACGATTCATAGCCTCCGGCGCTTAGTCAAAACCTACTTTCATTTTCTTG
CTAGGGGTTATTTCAAGGAGTAATCGAGCCTAACTTCAAAAGAGTCGATCCCATTTTTTTCTTTT
TTGCTGGAATGCCTGGAGGGGAGGCCTTATCATATTTAGCTAGGATGCTGCGAACAAATCTAGCA
AAAAAAAAGGTTTCTATCACAGCGCCTATTCCGGCTTTTCGAAAAATGGCTTCTACCGCAGCACC
TGATCTGGCTACTCACTCAGATGAGCTTCCTACTACGTACTCAGCTGAACTTCCAACTACTTACT
TGGCTGAACTAGCAGCCTCAGCTAACGAACTAGCTACCGTGACTG


Right flanking sequence: Indices 140570 -- 141069
TCCAATTCTAGAAAGGGATGCATTCCCGTCCAATCACCGAACCCGGAAAGAGGACTTCCAAGAGC
CTAACTCGGCGGGCAACAATAACCGCTTAGCCTCTATTAGCGGAATAGCCCGGGAAGCAGACGAA
GACTACGGAGTCGAATACCCTAATTCAAGATCGGATATAGGGCAGCCCCTCACTCCCGGACATCA
GTAGCTCCTAAAGCAAAGGAAGAGGTTATTCATAGCTCGACCAATAGGGAGAGGAATGCCAGACC
CAACTTCTCGCACATATTATAAGGCGGCAGAGAACTGGACCGGGTGAAGAATGAAAAACGTCCAC
TAACGCCCCCGGGATAAGATCTTTTTTAGATCAGCCGCTCTCTGGAGAATTGCATTGCCGCCGCA
TATAGCATGGGAAATCTGGTTAGCAATAAACCCACATTTTGTTGAAAAGCTCTGTTAGGTTCTTA
GTAGCAGTCGGCGACCTTTTCTTCTTTTACTTCACATAGCTTTTC



Found at i:148209 original size:18 final size:18

Alignment explanation


    Indices: 148186--148221  Score: 54
    Period size: 18  Copynumber: 2.0  Consensus size: 18

     148176 GTTGTTACAG

                    *    *    
     148186 AAGTGGATCGATTCGATC
          1 AAGTGGATAGATTAGATC

                              
     148204 AAGTGGATAGATTAGATC
          1 AAGTGGATAGATTAGATC

     148222 CTTTCAAGGG


Statistics
Matches: 16,  Mismatches: 2, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  18   16  1.00

ACGTcount: A:0.33, C:0.11, G:0.28, T:0.28


Consensus pattern (18 bp):   
AAGTGGATAGATTAGATC

Left flanking sequence: Indices 147686 -- 148185
GTCTAGTAATAAGATCGATGAAGAGGGAAGCCCGCCCTATTGAGAGAGTCTTCCTCAGCTTGCAG
CTAGGCTCTCCACTCCGGCATAGCAGCCTTTTTGCTTGCTTCTTCCTAGACTGGATAAGAGCTTA
CGGGAGCAGTTAAGCGTCTAAATCACTCATTCGATTTGAGGGACCCGGAACTCACGTTTTCTAAA
TAGTTGGCCTTTGAATGTCCACCCCGCTGGGACTCCGATACCTGCCTCCCTGACAACATAGCTTT
GCTAGCCCATACGGCCGACTTTATAGCACGAAATCTCTTGTTTGCCGCCCCCTTAGGAAAATCAT
ACAGCAAGGTCCTCGAACTCGCGATTTCCTTTTAACCACTTTTGTCAAATAGAACCTCTTAAAGT
GGTTATGCCTTATATTCCTTTCTTCCTTTGCCCAGTCGATTGACTTTCTTTCACAAGTAGGTCTG
ACTCTCTTCTGAGTTAGCTCTTCTTTTGACTTAGAGTTGTTACAG


Right flanking sequence: Indices 148222 -- 148721
CTTTCAAGGGAGTCTATGTCAAGTGAACGACTAAAAAGGAATCAAAGAAGCGGAGCTTTTGAGTA
AAGAATGGGTCACTCGTGAAAGAGATGGATCAACGTCTGGCCATTTTATTAAGCCTTGGCCCGGC
CTTAGCTTATGAGTTAACCTTTTCTTAAAAAGTACTTGTTTGAGCTCTTGATAGGAAAGGACAGA
GTAGCCTTAGCTCTTAGCTACCTTATAAAGGTAAGACTTTAAATTGCATATAGGACACCTAAAAA
GGAAATTCCTTTGAAAGTAAGTCAGAATGGAAGATTCATATGGAATTTCTATTACATTTCCTGTG
CCTGAACGAAAGTCATTAGTTAACATGAGGGTGCCGCATCCAATGCATGAAATTCCGCCTTATAA
TAAGTGGGAGATTCCGGGGGGGTTGTTGAGTCCCAGGCGTCCGAGGGAGTTTCGTCCAGTTGTAG
CGGGTTAGTATCGGCCTAAGAGACCGTTGGGGGAGAGAATCTCCT


Done.