Locus 1230

Sequence ID X_DroMel_CAF1
Location 3,663,012 – 3,663,123
Length 111
Max. P 0.709235
window1982

overview

Window 2

Location 3,663,012 – 3,663,123
Length 111
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 86.61
Mean single sequence MFE -34.55
Consensus MFE -23.66
Energy contribution -23.22
Covariance contribution -0.44
Combinations/Pair 1.13
Mean z-score -2.50
Structure conservation index 0.68
SVM decision value 0.37
SVM RNA-class probability 0.709235
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3663012 111 - 22224390
AGUCUGCUUCACUGACAAUUACAAUAGCUCAAUCAAGUAGACAACAGUCACCUGGCUGGCAAGACACAUGGUUCCGAGACCGGGCCUCAUCUCCAUGUUG---------GCUCUCUUGCC
.((((((((.(.(((.............))).).))))))))..(((((....)))))((((((.....((((....))))(((((.(((....)))..)---------)))))))))). ( -34.42)
>DroSec_CAF1 14892 120 - 1
AGUCUGCUUCACUGACAAUUACAAUAGCUCAAUCAAGUAGACAACAGUCACCUGGCUGGCAAGACAAAUUGCUCCGAGACCGGGCCUCAUCUCCAUGUUGUCUCCGUUGUCUCUCUUGCC
.((((((((.(.(((.............))).).))))))))..(((((....)))))((((((...........(((((((((...((.(.....).))..))))..))))))))))). ( -30.72)
>DroYak_CAF1 17252 111 - 1
AGUCUGCUUGACUGACAAUUACAAUAGCUCAAUCAAGUAGACAGCAGUCACCUGGCUGGCAGCGCACAUGGUCCCAAGACCGGGCCUCAUCUCCACGUUG---------CCUCCAUUGCC
.((((((((((.(((.............))).)))))))))).((((.....(((..(((((((.....((((....))))(((.......))).)))))---------)).))))))). ( -38.52)
>consensus
AGUCUGCUUCACUGACAAUUACAAUAGCUCAAUCAAGUAGACAACAGUCACCUGGCUGGCAAGACACAUGGUUCCGAGACCGGGCCUCAUCUCCAUGUUG_________CCUCUCUUGCC
.((((((((.(.(((.............))).).))))))))..(((((....)))))((((((.....(((((.......))))).((.(.....).)).............)))))). (-23.66 = -23.22 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:04:33 2006