Locus 3284

Sequence ID X_DroMel_CAF1
Location 8,729,904 – 8,729,996
Length 92
Max. P 0.996597
window5379 window5380

overview

Window 9

Location 8,729,904 – 8,729,996
Length 92
Sequences 6
Columns 118
Reading direction forward
Mean pairwise identity 75.73
Mean single sequence MFE -33.50
Consensus MFE -18.26
Energy contribution -19.60
Covariance contribution 1.34
Combinations/Pair 1.23
Mean z-score -3.10
Structure conservation index 0.55
SVM decision value 2.72
SVM RNA-class probability 0.996597
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8729904 92 + 22224390
GCCAUUUGUUGGAUU------------------------GUUGGUUUAUCUAGCUGACAAAUUUUGG-GCAACGAUUUUCGGGGAAGGCAACUGAAUGCGACAAG-UCAAUCAAUGGA
.(((((.(((((.((------------------------((..(((.....)))..))))..(((((-....).....(((.(..((....))...).)))))))-))))).))))). ( -24.40)
>DroSec_CAF1 10322 91 + 1
GCCAUUUGUUGGAUU------------------------GUCGGUUUAUCUAGCUGACAAAUU-UGG-CCCCCGAUUUUCGGGGAAGGCAACUGAAUGCGACAAA-UCAAUCAAUGGA
.(((((.(((((.((------------------------(((((((.....))))))))).((-((.-.(((((.....)))))...(((......)))..))))-))))).))))). ( -32.70)
>DroSim_CAF1 10802 91 + 1
GCCAUUUGUUGGAUU------------------------GUUGGUUUAUCUAGCUGACAAAUU-UGG-CCCCCGAUUUUCGGGGAAGGCAACUGAAUGCGACAAG-UCAAUCAAUGGA
.(((((.((((..((------------------------((((((((.....((..(.....)-..)-)(((((.....))))).((....)))))).)))))).-.)))).))))). ( -30.70)
>DroEre_CAF1 10465 99 + 1
GCCAUUUGUUGAAUCG----------------UUGGUUUGUUGGCUUAUCUAGCUGACAAAUU-UGG-CCCCCGAUUUUCGGGGAAGGCAAAUAAAUGCGACAAG-UCAAUCAAUGGA
.(((((.(((((...(----------------(((..((((..(((.....)))..))))(((-((.-((((((.....)))))..).))))).....))))...-))))).))))). ( -37.50)
>DroYak_CAF1 10833 116 + 1
GCCAUUUGUUGGAUUGUUGCUUUGUUGCUUUGUUGGUUUGUUGGUUUAUCUAGCUGACAAAUU-UGGUCCCCCGAUUUUGGGGGACGGCAAGUGAAUGAGACAAG-UCAAUCAAUGGA
.(((((.((((..(((((......(..(((.((((((((((..(((.....)))..)))))))-..((((((((....))))))))))))))..)....))))).-.)))).))))). ( -44.60)
>DroAna_CAF1 8857 79 + 1
GCCG--------------------------------UGUGUUGGUUUAUCUGGCUGACAAAUU-UGG----CCGAUUGCCGGGGGCG--AGGGGGAAGCCCCAAGCUCAAUCAGUGGA
((((--------------------------------..(((..(((.....)))..)))....-)))----)(.((((....((((.--.((((....))))..))))...)))).). ( -31.10)
>consensus
GCCAUUUGUUGGAUU________________________GUUGGUUUAUCUAGCUGACAAAUU_UGG_CCCCCGAUUUUCGGGGAAGGCAACUGAAUGCGACAAG_UCAAUCAAUGGA
.(((((.(((((...........................(((((((.....)))))))...........(((((.....)))))......................))))).))))). (-18.26 = -19.60 +   1.34)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 8,729,904 – 8,729,996
Length 92
Sequences 6
Columns 118
Reading direction reverse
Mean pairwise identity 75.73
Mean single sequence MFE -24.08
Consensus MFE -11.49
Energy contribution -13.18
Covariance contribution 1.69
Combinations/Pair 1.05
Mean z-score -2.47
Structure conservation index 0.48
SVM decision value 1.62
SVM RNA-class probability 0.967924
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8729904 92 - 22224390
UCCAUUGAUUGA-CUUGUCGCAUUCAGUUGCCUUCCCCGAAAAUCGUUGC-CCAAAAUUUGUCAGCUAGAUAAACCAAC------------------------AAUCCAACAAAUGGC
.(((((..(((.-.((((.(((......)))...................-......((((((.....))))))...))------------------------))..)))..))))). ( -13.50)
>DroSec_CAF1 10322 91 - 1
UCCAUUGAUUGA-UUUGUCGCAUUCAGUUGCCUUCCCCGAAAAUCGGGGG-CCA-AAUUUGUCAGCUAGAUAAACCGAC------------------------AAUCCAACAAAUGGC
.(((((..(((.-.((((((((......)))..((((((.....))))))-...-..((((((.....))))))..)))------------------------))..)))..))))). ( -28.90)
>DroSim_CAF1 10802 91 - 1
UCCAUUGAUUGA-CUUGUCGCAUUCAGUUGCCUUCCCCGAAAAUCGGGGG-CCA-AAUUUGUCAGCUAGAUAAACCAAC------------------------AAUCCAACAAAUGGC
.(((((..(((.-.((((.(((......)))..((((((.....))))))-...-..((((((.....))))))...))------------------------))..)))..))))). ( -23.60)
>DroEre_CAF1 10465 99 - 1
UCCAUUGAUUGA-CUUGUCGCAUUUAUUUGCCUUCCCCGAAAAUCGGGGG-CCA-AAUUUGUCAGCUAGAUAAGCCAACAAACCAA----------------CGAUUCAACAAAUGGC
.(((((..((((-.((((.(((......)))..((((((.....))))))-...-..(((((..(((.....)))..)))))...)----------------))).))))..))))). ( -28.00)
>DroYak_CAF1 10833 116 - 1
UCCAUUGAUUGA-CUUGUCUCAUUCACUUGCCGUCCCCCAAAAUCGGGGGACCA-AAUUUGUCAGCUAGAUAAACCAACAAACCAACAAAGCAACAAAGCAACAAUCCAACAAAUGGC
.(((((..(((.-.((((.........((((.(((((((......)))))))..-..((((((.....))))))................)))).......))))..)))..))))). ( -28.29)
>DroAna_CAF1 8857 79 - 1
UCCACUGAUUGAGCUUGGGGCUUCCCCCU--CGCCCCCGGCAAUCGG----CCA-AAUUUGUCAGCCAGAUAAACCAACACA--------------------------------CGGC
.((.((((((..(((.(((((........--.))))).)))))))))----...-..((((((.....))))))........--------------------------------.)). ( -22.20)
>consensus
UCCAUUGAUUGA_CUUGUCGCAUUCAGUUGCCUUCCCCGAAAAUCGGGGG_CCA_AAUUUGUCAGCUAGAUAAACCAAC________________________AAUCCAACAAAUGGC
.(((((..(((.......................(((((.....)))))........((((((.....)))))).................................)))..))))). (-11.49 = -13.18 +   1.69)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:55:35 2006