Locus 3225

Sequence ID 3L_DroMel_CAF1
Location 9,424,924 – 9,425,026
Length 102
Max. P 0.530787
window5022

overview

Window 2

Location 9,424,924 – 9,425,026
Length 102
Sequences 6
Columns 106
Reading direction reverse
Mean pairwise identity 83.42
Mean single sequence MFE -26.43
Consensus MFE -18.82
Energy contribution -18.68
Covariance contribution -0.13
Combinations/Pair 1.32
Mean z-score -1.65
Structure conservation index 0.71
SVM decision value -0.01
SVM RNA-class probability 0.530787
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9424924 102 - 23771897
CCAGACAACC----GCAUCCCUGGCUGAAUAUGAAAAGUAUGUGAGGGACAGCAAGCUGAAGGAGGAGGAACUUCUCAAGAAAUUCCUGCUGCUUUUGAACAGCAA
..........----((.(((((.((...((((.....)))))).)))))..))..(((((((.((.(((((.(((....))).))))).)).))).....)))).. ( -30.30)
>DroVir_CAF1 5935 105 - 1
-UAGCCAAUCCAAUGAAUUACUCAUAGAAUACGAGCAGUAUAUUAAGGACUCCAAGCUGGCGGAGAAAAAAUUGCUCAAGAAAUUUGUGAUGCUCAUCAAUAGCAA
-....................(((((((....(((((((..........((((........)))).....)))))))......)))))))((((.......)))). ( -16.66)
>DroSec_CAF1 3994 102 - 1
CCAGACAACC----GCAUCCCUGGCUGAAUAUGAAAAGUAUGUGAGGGACAGCAAACUGAAGGAGGAGGAACUUCUCAAGAAAUUCCUGCUGCUUUUGAACAGCAA
..........----((.(((((.((...((((.....)))))).))))).......(.((((.((.(((((.(((....))).))))).)).)))).)....)).. ( -27.60)
>DroSim_CAF1 2609 102 - 1
CCAGACAACC----GCAUCCCUGGCUGAAUAUGAAAAGUAUGUGAGGGACAGCAAACUGAAGGAGGAGGAACUUCUCAAGAAAUUCCUGCUACUUUUGAACAGCAA
..........----((.(((((.((...((((.....)))))).))))).........(((((((.(((((.(((....))).))))).)).))))).....)).. ( -25.70)
>DroEre_CAF1 3996 102 - 1
ACAGAUAACC----ACAUCUCUGGCCGAAUAUGAAAAGUAUGUGAGGGAGAGCAAGCUGAAGGAGCAGGAACUUCUCAAGAAAUUUCUGCUGCUUUUGAACAGCAA
..........----...(((((.((...((((.....)))))).)))))......(((((((.((((((((.(((....))).)))))))).))).....)))).. ( -27.00)
>DroYak_CAF1 4321 102 - 1
CCAGAACACC----ACAUCCCUGGCUGAAUACGAAAAGUAUGUGAGAGACAGCAAGCUGAAGGAGGAGGAACUUCUCAAGAAGUUCCUGCUGCUUUUGAACAGCAA
.(((......----......)))((((.((((.....)))).(....).))))..(((((((.((.(((((((((....))))))))).)).))).....)))).. ( -31.30)
>consensus
CCAGACAACC____GCAUCCCUGGCUGAAUAUGAAAAGUAUGUGAGGGACAGCAAGCUGAAGGAGGAGGAACUUCUCAAGAAAUUCCUGCUGCUUUUGAACAGCAA
.................(((((.((...((((.....)))))).)))))......(((((((.((.(((((.(((....))).))))).)).))).....)))).. (-18.82 = -18.68 +  -0.13)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:52:29 2006