Locus 1410

Sequence ID 3L_DroMel_CAF1
Location 4,104,618 – 4,104,720
Length 102
Max. P 0.654841
window2190

overview

Window 0

Location 4,104,618 – 4,104,720
Length 102
Sequences 5
Columns 115
Reading direction forward
Mean pairwise identity 78.80
Mean single sequence MFE -20.33
Consensus MFE -2.80
Energy contribution -1.36
Covariance contribution -1.44
Combinations/Pair 1.60
Mean z-score -1.80
Structure conservation index 0.14
SVM decision value 0.25
SVM RNA-class probability 0.654841
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4104618 102 + 23771897
AGAAUGAAAUCCGGGUGGAAAUACUUUUAGAUAAGCAAAGCUAA-AGCAAAACAAAAUAUUUCAGUUUGU------CAACAAC------UUGGUAAAGUGCUCCUCAAGGGUAUA
.........(((....))).((((((((.((..((((..((...-.)).............((((.(((.------...))).------)))).....))))..)))))))))). ( -16.70)
>DroSec_CAF1 6110 101 + 1
AGAAUGAAAUCCGGUUGGAAAAAA-UUCAGAUAAGCAGAGCGAA-AGCUAAACAAAAUAUUUCAGUUUGC------CAACAAC------AUGGUACAUAUACCCCCAAGGGUAUA
.............(((((...(((-((.(((((.....(((...-.)))........))))).))))).)------))))...------........(((((((....))))))) ( -23.62)
>DroSim_CAF1 6006 101 + 1
AGAAUAAAAUCCGGUUGGAAAAAA-UUCAGAUAAGCAGAGCGAA-AGCUAAACAAAAUAUUUCAGUUUGC------CAACAAC------AUGGUACAUAUACCCCCAAGGGUAUA
.............(((((...(((-((.(((((.....(((...-.)))........))))).))))).)------))))...------........(((((((....))))))) ( -23.62)
>DroEre_CAF1 6135 112 + 1
AGAAUGAAAUUCGGGUA-AAAAGCCUCCAGAUAAGCAAAGCAAA--CCAAAACAAAAUAUUUAAUUUUGCCUUCGCCAACAAGACAUUGAUGGUAAAGUGCCCCUCAAGGGUAUA
....((....((((((.-....))))...))....))..(((..--......((((((.....)))))).(((..(((.(((....))).)))..))))))(((....))).... ( -18.90)
>DroYak_CAF1 6264 103 + 1
AGAAUGAAAUCCGGGUAGAAAAACUUCCAGAUAAGAAAAGCAAAAAACAAGAGUAAAUAUUUCAUUUUGC------CAACAGC------AUGGUAAAGUGCUCCUCAAGGGUAUG
........(((((((.((.....)))))......((..(((.........(((.......)))(((((((------((.....------.))))))))))))..))..))))... ( -18.80)
>consensus
AGAAUGAAAUCCGGGUGGAAAAAC_UUCAGAUAAGCAAAGCAAA_AGCAAAACAAAAUAUUUCAGUUUGC______CAACAAC______AUGGUAAAGUGCCCCUCAAGGGUAUA
........(((.((((......))..)).))).....................................................................(((....))).... ( -2.80 =  -1.36 +  -1.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:06:46 2006