Locus 1409

Sequence ID 3L_DroMel_CAF1
Location 4,100,534 – 4,100,625
Length 91
Max. P 0.921420
window2189

overview

Window 9

Location 4,100,534 – 4,100,625
Length 91
Sequences 5
Columns 96
Reading direction forward
Mean pairwise identity 71.71
Mean single sequence MFE -14.11
Consensus MFE -10.76
Energy contribution -11.04
Covariance contribution 0.28
Combinations/Pair 1.15
Mean z-score -1.09
Structure conservation index 0.76
SVM decision value 1.14
SVM RNA-class probability 0.921420
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4100534 91 + 23771897
UUUGUGUGCUUAA--UGAAGGUGAAUGCACUUUGCACACACAAUAUGUAUUUAUACCACUCCAACUA---AUUCCAGCAACCCAAUCCCUUCCCGA
..(((((((....--..((((((....)))))))))))))...........................---.......................... ( -13.00)
>DroSec_CAF1 2048 89 + 1
UUUGUGUGCUCAA--UGGAGGUGAAUGCACUUUGCACACAAAAUAUGUAU-UAUCCCACUCCAACUA---ACUCCAACAAC-CAAUCCCUUUCCGA
(((((((((....--..((((((....)))))))))))))))........-................---...........-.............. ( -15.30)
>DroSim_CAF1 1959 90 + 1
UUUGUGUGCUCCA--UGGAGGUGAAUGCACUUUGCACACAUAAUACGGAU-UAUCCCACUCCAACUA---AUUCCACCAACCCAAUCCCUUUCCGA
..(((((((....--..((((((....))))))))))))).....((((.-................---.....................)))). ( -16.36)
>DroEre_CAF1 1961 78 + 1
UUUGUGUACUUAA--UGGAGGUGAAUGCACCUUGCACACAU-------AU-UACCCCACACCAUCUA---AGUUCAAC-----ACUCCCUUUUCGA
...((((((((((--((((((((....)))))((....)).-------..-.........)))).))---)))...))-----))........... ( -13.90)
>DroAna_CAF1 1843 85 + 1
UGUGUGUACUUUGUUUUGAGGUGAAUGCACUUUGCCCACAUU-UAAG----UAUC-CCCUCCUUCUAUAGAGCUCUA---CUGGAUCUCCCCCU--
...(..(((((.....((.((..((.....))..))))....-.)))----))..-)......(((((((....)))---.)))).........-- ( -12.00)
>consensus
UUUGUGUGCUUAA__UGGAGGUGAAUGCACUUUGCACACAUAAUAUG_AU_UAUCCCACUCCAACUA___AGUCCAACAAC_CAAUCCCUUUCCGA
..(((((((........((((((....)))))))))))))........................................................ (-10.76 = -11.04 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:06:45 2006