Locus 1535

Sequence ID 2L_DroMel_CAF1
Location 4,140,828 – 4,140,928
Length 100
Max. P 0.745946
window2484

overview

Window 4

Location 4,140,828 – 4,140,928
Length 100
Sequences 6
Columns 104
Reading direction reverse
Mean pairwise identity 80.29
Mean single sequence MFE -30.21
Consensus MFE -17.33
Energy contribution -18.33
Covariance contribution 1.00
Combinations/Pair 1.22
Mean z-score -2.10
Structure conservation index 0.57
SVM decision value 0.46
SVM RNA-class probability 0.745946
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4140828 100 - 22407834
AUCACCGCUCCCGCUCUUUG-GCCACUCGCUU---UCGAUGGAAAGCAGGAAGUUCAAUCGAAUUUCAACGGAAAUUGCCGACAUUUCAUGAGGUGUGAAAUGA
......((....))...(((-((..((.((((---((....))))))))(((((((....)))))))..........)))))((((((((.....)))))))). ( -28.20)
>DroSim_CAF1 273914 99 - 1
AUCCCCGC-CCGGCUCUUUG-GCCACUCCAUU---UCGAUGGAGGGCAGGAAGUUCAAUCGAAUUUCAACGGAAAUUGCCGACAUUUCAUGAGGUGUGAAAUGA
......((-((((((....)-)))..(((((.---...)))))))))..(((((((....)))))))..(((......))).((((((((.....)))))))). ( -35.70)
>DroEre_CAF1 284249 96 - 1
UUCCCCGC-CC---CCUUUG-GCCACUCGGUU---ACGAUGGAGGGCAGGAAGUUCAAUCGAAUUUCAACGGAAAUUGCCGACAUUUCAUGAGGUGUGAAAUGA
((((..((-((---((..((-(((....))))---)....)).))))..(((((((....)))))))...))))........((((((((.....)))))))). ( -32.20)
>DroWil_CAF1 385466 86 - 1
UUC--------GUCUCCAUC-GCCACCCA--------CAUGGCGAAC-GGAAGUUCAAUCGAAUUUCAACGGAAAUUGCCAACAUUUCAUGAGGUGUGAAAUGA
...--------...(((.((-((((....--------..))))))..-.(((((((....)))))))...))).........((((((((.....)))))))). ( -26.20)
>DroYak_CAF1 288873 96 - 1
UUCCGCGC-CG---CCUUUG-GCCACUCGGUU---UCAAUGGAGGGCAGGAAGUUCAAUCGAAUUUCAACGGAAAUUGCCGACAUUUCAUGAGGUGUGAAAUGA
(((((.((-(.---((.(((-(((....))).---.))).))..)))..(((((((....)))))))..)))))........((((((((.....)))))))). ( -30.90)
>DroAna_CAF1 318081 103 - 1
UGUUCCAG-CCGCCUCUUUUUUUUUUUUUGUUGGCCCGAUUGAAAGCAGGAAGUUCAAUCGAAUUUCAACGGAAAUUGCCGACAUUUCAUGAGGUGUGAAAUGA
.....((.-(((((((............(((((((.((((((((.........))))))))((((((....)))))))))))))......)))))).)...)). ( -28.07)
>consensus
UUCCCCGC_CCG_CUCUUUG_GCCACUCGGUU___UCGAUGGAGAGCAGGAAGUUCAAUCGAAUUUCAACGGAAAUUGCCGACAUUUCAUGAGGUGUGAAAUGA
.....................(((.(((.(((.....))).))))))..(((((((....)))))))..(((......))).((((((((.....)))))))). (-17.33 = -18.33 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:04:57 2006