Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold_626 ID=scaffold_626-JGI_221_v2.0
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: 6063
ACGTcount: A:0.24, C:0.19, G:0.15, T:0.27
Warning! 907 characters in sequence are not A, C, G, or T
Found at i:127 original size:76 final size:75
Alignment explanation
Indices: 1--360 Score: 432
Period size: 76 Copynumber: 4.7 Consensus size: 75
* *
1 AAATACCTCGGCATGACCCAAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTGAAAAACGG
1 AAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTGAAAAACGA
66 AAATTTAAAAG
66 AAATTT-AAAG
77 AAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTGAAAAACGA
1 AAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTGAAAAACGA
142 AAATTTAAAAG
66 AAATTT-AAAG
*
153 AAATACCTCGGCATGACCCAAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAC-
1 AAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGA-TTTTTGAAAAACG
* *
217 AAAAATTGAAG
65 AAAATTTAAAG
* * *
228 --ATACCTCAGG-ATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTT
1 AAATACCTC-GGCA--TGACCCGAGGCTCAACTCACCTCT-GTATTATGAGTTGA----TTTTTG
*
290 CAAAA-GCAGAAATTT----
58 AAAAACG-A-AAATTTAAAG
* **
305 AAATACCTCAGTGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTT
1 AAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTT
361 TGNNNNNNNN
Statistics
Matches: 255, Mismatches: 15, Indels: 32
0.84 0.05 0.11
Matches are distributed among these distances:
72 5 0.02
73 8 0.03
74 2 0.01
75 26 0.10
76 154 0.60
77 36 0.14
78 1 0.00
79 17 0.07
80 1 0.00
81 5 0.02
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.30
Consensus pattern (75 bp):
AAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTGAAAAACGA
AAATTTAAAG
Done.