Locus 3291

Sequence ID X_DroMel_CAF1
Location 8,759,300 – 8,759,414
Length 114
Max. P 0.999998
window5388 window5389

overview

Window 8

Location 8,759,300 – 8,759,414
Length 114
Sequences 3
Columns 116
Reading direction forward
Mean pairwise identity 72.22
Mean single sequence MFE -31.33
Consensus MFE -21.39
Energy contribution -23.39
Covariance contribution 2.00
Combinations/Pair 1.07
Mean z-score -4.41
Structure conservation index 0.68
SVM decision value 6.19
SVM RNA-class probability 0.999997
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8759300 114 + 22224390
-CCAAAAGUAUGCAGCGAACGUGAAAAAUGCCGUUUUCCGUUUUCCGCUGCAUUCUUUUGCACUUUCGCACACUAGUAUUGUUGAUAAUCCAAGGUAUUUUUGUGUCAC-CACCUU
-.((((((.((((((((((((.(((((......)))))))))...)))))))).)))))).......(((((..((((((.(((......)))))))))..)))))...-...... ( -32.70)
>DroSec_CAF1 7394 93 + 1
CCCAAAAGUAUGCAGCAA-------------UGUUUUCCAU--UCUGCUGCAUACUUUUG--------CACACUAGAAUUGUGGAUUUUCCAAGAGUUUUUCGUGGCACACGCCUU
..((((((((((((((((-------------((.....)))--..)))))))))))))))--------.((...((((((.(((.....)))..))))))..))(((....))).. ( -30.80)
>DroSim_CAF1 8367 88 + 1
-----AGGUAUGCAGCAA-------------UGUUUUCCAU--UCUGCUGCAUACUUUUG--------CACACUAGAAUUGUGGAUUUUCCAAGAGAUUUUCGUGGCACACACCUU
-----(((((((((((((-------------((.....)))--..)))))))))))).((--------(.(((.((((((.(((.....)))...)))))).))))))........ ( -30.50)
>consensus
_CCAAAAGUAUGCAGCAA_____________UGUUUUCCAU__UCUGCUGCAUACUUUUG________CACACUAGAAUUGUGGAUUUUCCAAGAGAUUUUCGUGGCACACACCUU
..(((((((((((((((............................)))))))))))))))..........(((.((((((.(((.....)))...)))))).)))........... (-21.39 = -23.39 +   2.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 8,759,300 – 8,759,414
Length 114
Sequences 3
Columns 116
Reading direction reverse
Mean pairwise identity 72.22
Mean single sequence MFE -30.19
Consensus MFE -20.27
Energy contribution -21.17
Covariance contribution 0.89
Combinations/Pair 1.12
Mean z-score -3.45
Structure conservation index 0.67
SVM decision value 6.30
SVM RNA-class probability 0.999998
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8759300 114 - 22224390
AAGGUG-GUGACACAAAAAUACCUUGGAUUAUCAACAAUACUAGUGUGCGAAAGUGCAAAAGAAUGCAGCGGAAAACGGAAAACGGCAUUUUUCACGUUCGCUGCAUACUUUUGG-
...(((-....))).......((......................(..(....)..)(((((.(((((((((...((((((((......))))).)))))))))))).)))))))- ( -34.50)
>DroSec_CAF1 7394 93 - 1
AAGGCGUGUGCCACGAAAAACUCUUGGAAAAUCCACAAUUCUAGUGUG--------CAAAAGUAUGCAGCAGA--AUGGAAAACA-------------UUGCUGCAUACUUUUGGG
..(((....)))(((.........(((.....))).........))).--------(((((((((((((((..--(((.....))-------------)))))))))))))))).. ( -31.07)
>DroSim_CAF1 8367 88 - 1
AAGGUGUGUGCCACGAAAAUCUCUUGGAAAAUCCACAAUUCUAGUGUG--------CAAAAGUAUGCAGCAGA--AUGGAAAACA-------------UUGCUGCAUACCU-----
........((((((((.....)).(((.....)))........))).)--------))...((((((((((..--(((.....))-------------)))))))))))..----- ( -25.00)
>consensus
AAGGUGUGUGCCACGAAAAUCUCUUGGAAAAUCCACAAUUCUAGUGUG________CAAAAGUAUGCAGCAGA__AUGGAAAACA_____________UUGCUGCAUACUUUUGG_
...........((((.........(((.....))).........))))........((((((((((((((((....((.....)).............)))))))))))))))).. (-20.27 = -21.17 +   0.89)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:55:43 2006