Locus 2574

Sequence ID 3L_DroMel_CAF1
Location 7,192,760 – 7,192,865
Length 105
Max. P 0.967636
window3996 window3997

overview

Window 6

Location 7,192,760 – 7,192,865
Length 105
Sequences 4
Columns 105
Reading direction forward
Mean pairwise identity 96.82
Mean single sequence MFE -25.78
Consensus MFE -24.99
Energy contribution -25.05
Covariance contribution 0.06
Combinations/Pair 1.03
Mean z-score -1.70
Structure conservation index 0.97
SVM decision value 0.52
SVM RNA-class probability 0.767200
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7192760 105 + 23771897
UAAUUAACAACAUGGCAAAUUUCGUUUCUGGCAAUUAAAACAAUUUAAUUAUUUGUGCGUGCAUAAUUGAAAUUGGAUCAAUUGCGAGGCGGUGCGAAGGCAGCC
.............(((.....(((((((..((((((.(..((((((......(((((....)))))...))))))..).)))))))))))))(((....)))))) ( -27.10)
>DroSec_CAF1 6259 105 + 1
UAAUUAACAACAUGGCAAAUUUCAUUUCUGGCAAUUAAAACAAUUUAAUUAUUUGUGCGUGCAUAAUUGAAAUUGCAUCAAUUGCGAGGCGGUGCGAAGGCAGCC
.............(((..........(((.((((((....((((((......(((((....)))))...))))))....)))))).)))...(((....)))))) ( -23.30)
>DroEre_CAF1 6179 104 + 1
UAAUUAACAACAUGGCAA-CUUCGUUUCUGGCAAUUAAAACAAUUUAAUUAUUUGUGCGUGCAUAAUUGAAAUUGCAUCAAUUGCGAGGCGGUGCGAAGGCAGCC
.............(((..-((((((.(((.((((((....((((((......(((((....)))))...))))))....)))))).)))....))))))...))) ( -26.40)
>DroYak_CAF1 3239 104 + 1
UAAUUAACGACAUGGCAA-CUUCGUUUCUGGCAAUUAAAACAAUUUAAUUAUUUGUGCGUGCAUAAUUGAAAUUGCAUCAAUUGCGAAGCGGUGCGAAGGCAGCC
.............(((..-..(((((((..((((((....((((((......(((((....)))))...))))))....)))))))))))))(((....)))))) ( -26.30)
>consensus
UAAUUAACAACAUGGCAA_CUUCGUUUCUGGCAAUUAAAACAAUUUAAUUAUUUGUGCGUGCAUAAUUGAAAUUGCAUCAAUUGCGAGGCGGUGCGAAGGCAGCC
.............(((.....(((((((..((((((....((((((......(((((....)))))...))))))....)))))))))))))(((....)))))) (-24.99 = -25.05 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 7,192,760 – 7,192,865
Length 105
Sequences 4
Columns 105
Reading direction reverse
Mean pairwise identity 96.82
Mean single sequence MFE -25.12
Consensus MFE -23.98
Energy contribution -24.10
Covariance contribution 0.12
Combinations/Pair 1.07
Mean z-score -2.47
Structure conservation index 0.95
SVM decision value 1.61
SVM RNA-class probability 0.967636
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7192760 105 - 23771897
GGCUGCCUUCGCACCGCCUCGCAAUUGAUCCAAUUUCAAUUAUGCACGCACAAAUAAUUAAAUUGUUUUAAUUGCCAGAAACGAAAUUUGCCAUGUUGUUAAUUA
(((....((((......((.((((((((..((((((.((((((..........))))))))))))..)))))))).))...))))....)))............. ( -23.40)
>DroSec_CAF1 6259 105 - 1
GGCUGCCUUCGCACCGCCUCGCAAUUGAUGCAAUUUCAAUUAUGCACGCACAAAUAAUUAAAUUGUUUUAAUUGCCAGAAAUGAAAUUUGCCAUGUUGUUAAUUA
((((((....)))....((.((((((((.(((((((.((((((..........))))))))))))).)))))))).))...........)))............. ( -23.40)
>DroEre_CAF1 6179 104 - 1
GGCUGCCUUCGCACCGCCUCGCAAUUGAUGCAAUUUCAAUUAUGCACGCACAAAUAAUUAAAUUGUUUUAAUUGCCAGAAACGAAG-UUGCCAUGUUGUUAAUUA
(((...(((((......((.((((((((.(((((((.((((((..........))))))))))))).)))))))).))...)))))-..)))............. ( -26.80)
>DroYak_CAF1 3239 104 - 1
GGCUGCCUUCGCACCGCUUCGCAAUUGAUGCAAUUUCAAUUAUGCACGCACAAAUAAUUAAAUUGUUUUAAUUGCCAGAAACGAAG-UUGCCAUGUCGUUAAUUA
(((...(((((.....((..((((((((.(((((((.((((((..........))))))))))))).)))))))).))...)))))-..)))............. ( -26.90)
>consensus
GGCUGCCUUCGCACCGCCUCGCAAUUGAUGCAAUUUCAAUUAUGCACGCACAAAUAAUUAAAUUGUUUUAAUUGCCAGAAACGAAA_UUGCCAUGUUGUUAAUUA
(((...(((((......((.((((((((..((((((.((((((..........))))))))))))..)))))))).))...)))))...)))............. (-23.98 = -24.10 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:36:03 2006