Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold883
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: 4695
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.25
Warning! 192 characters in sequence are not A, C, G, or T
Found at i:94 original size:27 final size:27
Alignment explanation
Indices: 37--94 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
27 AGCTACACAG
**
37 GATAAGTCGAATAACTCTAAGCCTGGC
1 GATAAGTCGAATAACTCTAAGCCTAAC
* * * *
64 GATAAGTCTAATACCTCTAATCCTAAT
1 GATAAGTCGAATAACTCTAAGCCTAAC
91 GATA
1 GATA
95 GGTCCCCAAA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.28
Consensus pattern (27 bp):
GATAAGTCGAATAACTCTAAGCCTAAC
Found at i:2226 original size:393 final size:393
Alignment explanation
Indices: 1501--2288 Score: 1576
Period size: 393 Copynumber: 2.0 Consensus size: 393
1491 GCTGGATATA
1501 AAATGTTTAACTCATTTCATCCAGCAAATAAGCACAGAGGTGGGTCTTCCATTTTAATTAAAGAA
1 AAATGTTTAACTCATTTCATCCAGCAAATAAGCACAGAGGTGGGTCTTCCATTTTAATTAAAGAA
1566 AACATTACTCACAATCTTATCAAGATGATAGAGACAAATGCTTTTCAAGTTGTAATCGTAAACGT
66 AACATTACTCACAATCTTATCAAGATGATAGAGACAAATGCTTTTCAAGTTGTAATCGTAAACGT
1631 GCAAACTGAATTAGACTCTTTCAACATAGCCTCAATATACACTCCACCCCGTAACATCCTCTCAA
131 GCAAACTGAATTAGACTCTTTCAACATAGCCTCAATATACACTCCACCCCGTAACATCCTCTCAA
1696 CTGAGGATTACACTGAGTTTTTGGAGGAATTAGGCCCAAAGTATCTGATCGGTGGGGATTGGAAC
196 CTGAGGATTACACTGAGTTTTTGGAGGAATTAGGCCCAAAGTATCTGATCGGTGGGGATTGGAAC
1761 GCTAAAAATCCTCGATGGGGATCCAGGAGAGATAACCCTAAAGGCGTATCACTCCTAGAAGCAGT
261 GCTAAAAATCCTCGATGGGGATCCAGGAGAGATAACCCTAAAGGCGTATCACTCCTAGAAGCAGT
1826 TAATTTGGTTGGCGGGAATTTTATATCCCCCGGAAAACCGACAAATTTTCCCACTAATCCAGGCC
326 TAATTTGGTTGGCGGGAATTTTATATCCCCCGGAAAACCGACAAATTTTCCCACTAATCCAGGCC
1891 ACC
391 ACC
1894 AAATGTTTAACTCATTTCATCCAGCAAATAAGCACAGAGGTGGGTCTTCCATTTTAATTAAAGAA
1 AAATGTTTAACTCATTTCATCCAGCAAATAAGCACAGAGGTGGGTCTTCCATTTTAATTAAAGAA
1959 AACATTACTCACAATCTTATCAAGATGATAGAGACAAATGCTTTTCAAGTTGTAATCGTAAACGT
66 AACATTACTCACAATCTTATCAAGATGATAGAGACAAATGCTTTTCAAGTTGTAATCGTAAACGT
2024 GCAAACTGAATTAGACTCTTTCAACATAGCCTCAATATACACTCCACCCCGTAACATCCTCTCAA
131 GCAAACTGAATTAGACTCTTTCAACATAGCCTCAATATACACTCCACCCCGTAACATCCTCTCAA
2089 CTGAGGATTACACTGAGTTTTTGGAGGAATTAGGCCCAAAGTATCTGATCGGTGGGGATTGGAAC
196 CTGAGGATTACACTGAGTTTTTGGAGGAATTAGGCCCAAAGTATCTGATCGGTGGGGATTGGAAC
2154 GCTAAAAATCCTCGATGGGGATCCAGGAGAGATAACCCTAAAGGCGTATCACTCCTAGAAGCAGT
261 GCTAAAAATCCTCGATGGGGATCCAGGAGAGATAACCCTAAAGGCGTATCACTCCTAGAAGCAGT
2219 TAATTTGGTTGGCGGGAATTTTATATCCCCCGGAAAACCGACAAATTTTCCCACTAATCCAGGCC
326 TAATTTGGTTGGCGGGAATTTTATATCCCCCGGAAAACCGACAAATTTTCCCACTAATCCAGGCC
2284 ACC
391 ACC
2287 AA
1 AA
2289 CCTGATCTAA
Statistics
Matches: 395, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
393 395 1.00
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (393 bp):
AAATGTTTAACTCATTTCATCCAGCAAATAAGCACAGAGGTGGGTCTTCCATTTTAATTAAAGAA
AACATTACTCACAATCTTATCAAGATGATAGAGACAAATGCTTTTCAAGTTGTAATCGTAAACGT
GCAAACTGAATTAGACTCTTTCAACATAGCCTCAATATACACTCCACCCCGTAACATCCTCTCAA
CTGAGGATTACACTGAGTTTTTGGAGGAATTAGGCCCAAAGTATCTGATCGGTGGGGATTGGAAC
GCTAAAAATCCTCGATGGGGATCCAGGAGAGATAACCCTAAAGGCGTATCACTCCTAGAAGCAGT
TAATTTGGTTGGCGGGAATTTTATATCCCCCGGAAAACCGACAAATTTTCCCACTAATCCAGGCC
ACC
Done.