Locus 2006

Sequence ID 3L_DroMel_CAF1
Location 5,516,408 – 5,516,498
Length 90
Max. P 0.899852
window3140

overview

Window 0

Location 5,516,408 – 5,516,498
Length 90
Sequences 6
Columns 90
Reading direction reverse
Mean pairwise identity 94.37
Mean single sequence MFE -20.00
Consensus MFE -17.31
Energy contribution -17.67
Covariance contribution 0.36
Combinations/Pair 1.06
Mean z-score -1.90
Structure conservation index 0.87
SVM decision value 1.01
SVM RNA-class probability 0.899852
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5516408 90 - 23771897
UACACGAGCACCUACACGCACACAGAGACCGGUUUUCCUGGGGCCAUUCCAUACACUCCAGGUUAGCCCUCCAACGAUUUCUCUACUCAU
.....((((........))....(((((..((((..(((((((............)))))))..)))).((....))..)))))..)).. ( -20.40)
>DroSec_CAF1 78127 90 - 1
UACACGAGCACCUACACGCACACAGAGACCGGUUUUCCUGGGGCCAUUCCAUACACUCCAGGUUAGCCCUCCAACGAUUUCUCUACACAU
.......((........))....(((((..((((..(((((((............)))))))..)))).((....))..)))))...... ( -20.20)
>DroSim_CAF1 79629 90 - 1
UACACGAGCACCUACACGCACACAGAGACCGGUUUUCCUGGGGCCAUUCCAUACACUCCAGGUUAGCCCUCCAACGAUUUCUCUACACAU
.......((........))....(((((..((((..(((((((............)))))))..)))).((....))..)))))...... ( -20.20)
>DroEre_CAF1 79001 90 - 1
UACACGAGCACCUACACGCACACAGAGACCGGUUUUCCUGGGGCCAUUCCAUACACUCCAGGUUAGCCCUCCAACGAUUUCUCUACUCAU
.....((((........))....(((((..((((..(((((((............)))))))..)))).((....))..)))))..)).. ( -20.40)
>DroYak_CAF1 67106 90 - 1
UACACGAGCACCUACACGCACACAGAGACCGGUUUUCCUGGGGCCAUUCCAUACACUCCAGGUUAGCCCUCCAACGAUUUCUCUACUCAU
.....((((........))....(((((..((((..(((((((............)))))))..)))).((....))..)))))..)).. ( -20.40)
>DroAna_CAF1 40390 89 - 1
UACACGAGCACCUACACGUACACCGAGACCGGUUUUCCUGGGGCCAUCGCCUAUCAAGCAGGUUAGCCCUCCACCGAUUU-UCUACGCUU
.....((((.....((.(...((((....))))...).))((((....((((.......))))..))))...........-.....)))) ( -18.40)
>consensus
UACACGAGCACCUACACGCACACAGAGACCGGUUUUCCUGGGGCCAUUCCAUACACUCCAGGUUAGCCCUCCAACGAUUUCUCUACUCAU
....((.((........)).....(((...((((..(((((((............)))))))..)))))))...)).............. (-17.31 = -17.67 +   0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:22:18 2006