Locus 4208

Sequence ID 2R_DroMel_CAF1
Location 13,833,852 – 13,833,951
Length 99
Max. P 0.843061
window6764

overview

Window 4

Location 13,833,852 – 13,833,951
Length 99
Sequences 5
Columns 101
Reading direction forward
Mean pairwise identity 93.66
Mean single sequence MFE -26.20
Consensus MFE -22.97
Energy contribution -22.73
Covariance contribution -0.24
Combinations/Pair 1.04
Mean z-score -1.41
Structure conservation index 0.88
SVM decision value 0.76
SVM RNA-class probability 0.843061
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 13833852 99 + 20766785
GA--GGGAUUCUCGCAAUUUUCAUUUGCUGUGCUGCAAAAACGAAAAUGAAAACAAACAGCAUCUGGUGGGAAAAGCGAUUUUCAAUCGUCACUUCCCGCU
..--(((((((((((.((((((.(((((......)))))...)))))).........(((...))))))))))..(((((.....)))))....))))... ( -25.60)
>DroSec_CAF1 134315 101 + 1
GGAGGAGAUUCUCGCAAUUUUCAUUUGCUGUGCUGCAAAAACGAAAAUGAAAACAAACAGCAUCUGGUGGGAAAAGCGAUUUUCAAUCGUCACUUCCCGCU
((.((((.(((((((.((((((.(((((......)))))...)))))).........(((...))))))))))..(((((.....)))))..))))))... ( -25.40)
>DroSim_CAF1 139561 101 + 1
GGAGGAGAUUCUCGCAAUUUUCAUUUGCUGUGCUGCAAAAACGAAAAUGAAAACAAACAGCAUCUGGUGGGAAAAGCGAUUUUCAAUCGUCACUUCCCGCU
((.((((.(((((((.((((((.(((((......)))))...)))))).........(((...))))))))))..(((((.....)))))..))))))... ( -25.40)
>DroEre_CAF1 134981 99 + 1
-GGGGGGAUUCUAGCAAUUUUCAUUUGCGU-GCUGCAAGUACGAAAAAGAAAACAAACAGCAUCUGGUGGGAAAAGCGAUUUUCAAUCGUCACUUCCCGCU
-....((((.((.....(((((.(((.(((-((.....))))).))).))))).....)).))))((((((((..(((((.....)))))...)))))))) ( -27.20)
>DroYak_CAF1 139085 100 + 1
-GGGGGGAUUCUCGCAAUUUUCAUUUGCUUGGCUGCAAAAACGAAAAGGAAAACAAACAGCAUCUGGUGGGAAAAGCGAUUUUCAAUCGUCACUUCCCGCU
-((((((.(((((((..(((((.(((((......)))))...)))))..........(((...))))))))))..(((((.....)))))..))))))... ( -27.40)
>consensus
GGAGGGGAUUCUCGCAAUUUUCAUUUGCUGUGCUGCAAAAACGAAAAUGAAAACAAACAGCAUCUGGUGGGAAAAGCGAUUUUCAAUCGUCACUUCCCGCU
.....((((....((((.......))))...((((......................))))))))((((((((..(((((.....)))))...)))))))) (-22.97 = -22.73 +  -0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:14:20 2006