Locus 8672

Sequence ID X_DroMel_CAF1
Location 21,962,896 – 21,963,014
Length 118
Max. P 0.959426
window14259 window14260

overview

Window 9

Location 21,962,896 – 21,963,014
Length 118
Sequences 4
Columns 118
Reading direction forward
Mean pairwise identity 93.48
Mean single sequence MFE -29.89
Consensus MFE -27.23
Energy contribution -27.54
Covariance contribution 0.31
Combinations/Pair 1.06
Mean z-score -2.14
Structure conservation index 0.91
SVM decision value 1.50
SVM RNA-class probability 0.959426
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21962896 118 + 22224390
CCUUAGUGCAUCGCAUUUUAUGCAAAUGGCAGACGACAAUCAAUUUUUAGUUUUGUGUCUGGACUGCGGCAUUUGCAUUUGCAUUUGCAUUCGCCAUGCCGUUUGGUAUUCAGAAAUU
.((.(((((...((((...))))(((((((((((.((((.............)))))))(((......(((..(((....)))..))).....))))))))))).))))).))..... ( -31.82)
>DroSec_CAF1 25348 112 + 1
CCUUAGUGCAUCGCAUUUUAUGCAAAUGGCAGACGAAAAUCAAUUUUUACUUUUGUGUCUGCACUGCGGCAUUUGCA------UUUGCAUUCGCCAUGCCAUUUGGCAUUCAGAAAUU
............(((....((((((((((((((((.(((............))).))))))).(....)))))))))------).))).(((...(((((....)))))...)))... ( -30.10)
>DroSim_CAF1 14580 112 + 1
CCUUAGUGCAUCGCAUUUUAUGCAAAUGGCAGACGACAAUCAAUUUUUACUUUUGUGUCUGCACUGCGGCAUUUGCA------UUUGCAUUCGCCAUGCCAUUUGGCAUUCAGAAAUU
............(((....(((((((((((((((.((((.............)))))))))).(....)))))))))------).))).(((...(((((....)))))...)))... ( -32.02)
>DroEre_CAF1 10579 112 + 1
CCUUAGUGCAUCGCAUUUUAUGCAAAUGGCAGACGACAAUCAAUUUUUAGUUUUGUGUCUGGACUGCGGCAUUUUCA------UUUGCAUUCGCCAUUCCGUUUGGCAUUCAGAAACU
.((.(((((...((((...))))(((((((((((.((((.............)))))))))....((((((......------..)))...)))....)))))).))))).))..... ( -25.62)
>consensus
CCUUAGUGCAUCGCAUUUUAUGCAAAUGGCAGACGACAAUCAAUUUUUACUUUUGUGUCUGCACUGCGGCAUUUGCA______UUUGCAUUCGCCAUGCCAUUUGGCAUUCAGAAAUU
.((.(((((...((((...))))(((((((((((.((((.............)))))))).......(((...((((........))))...)))..))))))).))))).))..... (-27.23 = -27.54 +   0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 21,962,896 – 21,963,014
Length 118
Sequences 4
Columns 118
Reading direction reverse
Mean pairwise identity 93.48
Mean single sequence MFE -29.88
Consensus MFE -23.40
Energy contribution -24.89
Covariance contribution 1.50
Combinations/Pair 1.00
Mean z-score -2.49
Structure conservation index 0.78
SVM decision value 0.65
SVM RNA-class probability 0.812803
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21962896 118 - 22224390
AAUUUCUGAAUACCAAACGGCAUGGCGAAUGCAAAUGCAAAUGCAAAUGCCGCAGUCCAGACACAAAACUAAAAAUUGAUUGUCGUCUGCCAUUUGCAUAAAAUGCGAUGCACUAAGG
............((.....((((.(((..(((....))).(((((((((..((((....(((((((.........)))..))))..)))))))))))))....))).)))).....)) ( -31.20)
>DroSec_CAF1 25348 112 - 1
AAUUUCUGAAUGCCAAAUGGCAUGGCGAAUGCAAA------UGCAAAUGCCGCAGUGCAGACACAAAAGUAAAAAUUGAUUUUCGUCUGCCAUUUGCAUAAAAUGCGAUGCACUAAGG
.........(((((....)))))((((..(((...------.)))..))))((((.((((((...(((((........))))).)))))))..((((((...)))))))))....... ( -31.20)
>DroSim_CAF1 14580 112 - 1
AAUUUCUGAAUGCCAAAUGGCAUGGCGAAUGCAAA------UGCAAAUGCCGCAGUGCAGACACAAAAGUAAAAAUUGAUUGUCGUCUGCCAUUUGCAUAAAAUGCGAUGCACUAAGG
.........(((((....)))))((((..(((...------.)))..))))((((.((((((((((.(((....)))..)))).)))))))..((((((...)))))))))....... ( -33.70)
>DroEre_CAF1 10579 112 - 1
AGUUUCUGAAUGCCAAACGGAAUGGCGAAUGCAAA------UGAAAAUGCCGCAGUCCAGACACAAAACUAAAAAUUGAUUGUCGUCUGCCAUUUGCAUAAAAUGCGAUGCACUAAGG
.((.((....(((((.......))))).(((((((------((........((((....(((((((.........)))..))))..))))))))))))).......)).))....... ( -23.40)
>consensus
AAUUUCUGAAUGCCAAACGGCAUGGCGAAUGCAAA______UGCAAAUGCCGCAGUCCAGACACAAAACUAAAAAUUGAUUGUCGUCUGCCAUUUGCAUAAAAUGCGAUGCACUAAGG
.........(((((....)))))((((..((((........))))..))))(((..((((((((((.............)))).))))))...((((((...)))))))))....... (-23.40 = -24.89 +   1.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:10:01 2006