Locus 1976

Sequence ID 3R_DroMel_CAF1
Location 5,575,975 – 5,576,067
Length 92
Max. P 0.542280
window3237

overview

Window 7

Location 5,575,975 – 5,576,067
Length 92
Sequences 6
Columns 106
Reading direction reverse
Mean pairwise identity 80.92
Mean single sequence MFE -25.53
Consensus MFE -23.05
Energy contribution -23.05
Covariance contribution 0.00
Combinations/Pair 1.14
Mean z-score -1.14
Structure conservation index 0.90
SVM decision value 0.02
SVM RNA-class probability 0.542280
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5575975 92 - 27905053
----ACUACGCCAGCCAGUUCAUUAGGCUGUUGGCAUAGGCCAUGGGCUUGACGUCGGGAUGUGGCUGAAAAG--AU--------UACGCUAAUGAAUUGACCCGA
----...........((((((((((((..(((......(((((((..((((....)))).))))))).....)--))--------..).)))))))))))...... ( -26.50)
>DroGri_CAF1 10740 98 - 1
UAUGACUACGCCAGCCAGUUCAUUAGACUAUUGGCAUAUGCCAUUGGCUUGACAUCAGGAUGUGGCUGUGAAUAGAAUA------AACGUUAUU--UUUUACAACU
.....(((..(((((((..........(((.((((....)))).)))((((....))))...)))))).)..)))....------.........--.......... ( -23.30)
>DroSec_CAF1 7260 92 - 1
----ACUACGCCAGCCAGUUCAUUAGACUGUUGGCAUAGGCCAUUGGCUUGACGUCGGGAUGUGGCUGAAAAG--AU--------UACGAUAAUGAAUUGACUCGA
----.(((.((((((.((((.....)))))))))).)))(((((...((((....))))..))))).......--..--------..((((.....))))...... ( -25.50)
>DroSim_CAF1 7143 92 - 1
----ACUACGCCAGCCAGUUCAUUAGGCUGUUGGCAUAGGCCAUUGGCUUGACGUCGGGAUGUGGCUGAAAAG--AU--------UACGAUAAUGAAUUGACUCGA
----....((..((.((((((((((((((..((((....))))..))))))).((((..((.(........).--))--------..))))..))))))).)))). ( -26.10)
>DroYak_CAF1 7342 95 - 1
----ACUACGCCAGCCAGUUCAUUAAACUGUUGGCAUAGGCCAUGGGCUUGACGUCGGGAUGUGGCUGAAUAG--AAUA-----GAACGAUAAUGAAUUGACUAGA
----.(((.((((((.((((.....)))))))))).)))((((((..((((....)))).)))))).......--....-----...((((.....))))...... ( -24.80)
>DroPer_CAF1 9997 101 - 1
UAUGACUACGCCAGCCAGUGCAUUAAGCUGUUGGCAUAGGCCAUCGGCUUGACAUCGGGAUGUGGCUAAACAA--AAUAAACAA-AACAAAAAU--AUUGUCAAGA
..((((...((((((.(((.......)))))))))...((((((...((((....))))..))))))......--.........-.........--...))))... ( -27.00)
>consensus
____ACUACGCCAGCCAGUUCAUUAGACUGUUGGCAUAGGCCAUUGGCUUGACGUCGGGAUGUGGCUGAAAAG__AA________AACGAUAAUGAAUUGACUAGA
.....(((.((((((.((((.....)))))))))).)))(((((...((((....))))..)))))........................................ (-23.05 = -23.05 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:24:13 2006