Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold2515
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, 552
Length: 921
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.29
Warning! 42 characters in sequence are not A, C, G, or T
Found at i:247 original size:132 final size:132
Alignment explanation
Indices: 1--835 Score: 1102
Period size: 132 Copynumber: 6.3 Consensus size: 132
* * * * * * *
1 TACTCCACTACTGCTTAGGGAGATTGGACTAATGGCTGAAA-CTGCTTCTCCTCTATCTTGAGAA
1 TACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAA
* * * *
65 GATAAGAATCACCATCTTCGATCCGCTCAACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAA
66 GATAAGATTCACCATATTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAA
130 CC
131 CC
*
132 TACTCCACTACTGCTTAGGGTGATATGG-CTAATGGCTTAAATCTGCTTCTCCACTATATTGGGA
1 TACTCCACTACTGCTTAGGGTGATA-GGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGA
* ** * * * * * *
196 AAATAAGATTCATTATATTCGATCTACTTCACTACTGTTTAAGGTGGCAGAATCTGTAATCTTCA
65 AGATAAGATTCACCATATTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCA
261 ACC
130 ACC
* * * * * *
264 AATTCCACTA-TGGCTTAGAGAGATAGGACTAATGGCTTAAATCTGCTTCTCCAATGTATTCGGA
1 TACTCCACTACT-GCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGA
* * *
328 AAATAAGATTCACCATCTTCGATCAGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCA
65 AGATAAGATTCACCATATTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCA
393 ACC
130 ACC
* * * * *
396 TACTCCGCTACTACTTAGGGTGATTGAACTAATGGCTTAAATCTTCTTCTCCACTGTA-TGAGGA
1 TACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTG-GGA
* * ** * *
460 AGATAAGGTTCATCAGCTTCGATCTGCTCCACTACAGCTTAGGGTGACAGAATCTGGAATCTTCA
65 AGATAAGATTCACCATATTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCA
525 ACC
130 ACC
* * * *
528 GACTCCACTACTGCTTAGGGTGACAGGAATAATGGCTTAAATCTGCTTCTCTACTGTATTGGGAA
1 TACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAA
* * *
593 GATAAGATTCACCATATTCGATCGGCTCCACTACTGCTTAGAGTGACAGAATCTACAATCTTCAA
66 GATAAGATTCACCATATTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAA
658 CC
131 CC
* * *
660 TACTTCAGTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTCCTTCTCCACTGTATTGGGAA
1 TACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAA
* * *
725 GATAAGATTGACCATATTCGTTCTGCTCCACTACTACTTAGGGTGACAGAATCTGCAATCTTCAA
66 GATAAGATTCACCATATTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAA
790 CC
131 CC
** *
792 TTTTCCACTACTACTTAGGGTGATAGGACTAATGGCTTAAATCT
1 TACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCT
836 NNNNNNNNNN
Statistics
Matches: 607, Mismatches: 90, Indels: 13
0.85 0.13 0.02
Matches are distributed among these distances:
131 39 0.06
132 565 0.93
133 3 0.00
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (132 bp):
TACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAA
GATAAGATTCACCATATTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAA
CC
Done.