Locus 1219

Sequence ID X_DroMel_CAF1
Location 3,627,339 – 3,627,432
Length 93
Max. P 0.777187
window1958

overview

Window 8

Location 3,627,339 – 3,627,432
Length 93
Sequences 4
Columns 105
Reading direction reverse
Mean pairwise identity 78.79
Mean single sequence MFE -39.42
Consensus MFE -28.17
Energy contribution -29.92
Covariance contribution 1.75
Combinations/Pair 1.17
Mean z-score -1.73
Structure conservation index 0.71
SVM decision value 0.55
SVM RNA-class probability 0.777187
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3627339 93 - 22224390
CAUCUCGCCUCCAUUAUUGGAGUGUUGAGGUGGGGGCGGCGGU---GGUUGCUGCAUUCCCAGUGUGGGCGCAAAGGCGGGAUGUUG---------CUGUUGAAU
(((((((((((((....))))(((((.(.(((((.((((((..---...))))))...)))).).).)))))...)))))))))...---------......... ( -39.80)
>DroSec_CAF1 6676 93 - 1
CAUCUCGCCUCCAUUAUUGGAGUGUUGAGGUGGUGGCGGCGGU---GGUUGCUGCAUUCCCAGUGUGGGCGCAAAGGCGGGAUGUUG---------CUGUUGAAU
(((((((((((((....))))(((((.(.((((..((((((..---...))))))....))).).).)))))...)))))))))...---------......... ( -36.20)
>DroEre_CAF1 6774 102 - 1
CAUCUCGCCUCCAUUAUUAGAGUGCUGAGGGGGCGGCGGCGGC---GGCUGCUGCAUUCCAAGUGCGGGCGCAAAGGCGGGAUGUUGCUGUUGUUGCUGUUGAAU
.....(((((((....((((....)))))))))))((((((((---(((.((.(((((((...(((....))).....))))))).)).)))))))))))..... ( -44.30)
>DroAna_CAF1 12026 92 - 1
GGCCACGCCCCCAUUGUUUGAAUGCUGCUGCGGGGGCGGCGGUGGAGGCUGCUGCAUGCCCAGGGCGGGUGGAAAGGCGGGAUGCUG---------UUGUU----
..((((.(((((...........((....))(((.((((((((....))))))))...))).))).))))))...(((((....)))---------))...---- ( -37.40)
>consensus
CAUCUCGCCUCCAUUAUUGGAGUGCUGAGGUGGGGGCGGCGGU___GGCUGCUGCAUUCCCAGUGCGGGCGCAAAGGCGGGAUGUUG_________CUGUUGAAU
(((((((((((((....))))(((((..(.((((.(((((((......)))))))...)))).)...)))))...)))))))))..................... (-28.17 = -29.92 +   1.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:04:11 2006