Locus 8376

Sequence ID 3R_DroMel_CAF1
Location 22,348,420 – 22,348,520
Length 100
Max. P 0.775653
window13494

overview

Window 4

Location 22,348,420 – 22,348,520
Length 100
Sequences 5
Columns 100
Reading direction reverse
Mean pairwise identity 96.80
Mean single sequence MFE -19.59
Consensus MFE -16.62
Energy contribution -17.22
Covariance contribution 0.60
Combinations/Pair 1.00
Mean z-score -1.60
Structure conservation index 0.85
SVM decision value 0.54
SVM RNA-class probability 0.775653
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22348420 100 - 27905053
CAAGGGUGUGCCCGCUUGCAAUUAAAUUGCGCCGAAUAACAAAAAGUAGAGGCGAAAACCAAAACUCAACUAAAAAGGCAUUAAAUAAAUGGAGAGCAUG
...(((....)))(((((((((...)))))((((.....)....(((.(((.............))).))).....)))..............))))... ( -20.12)
>DroSec_CAF1 56190 100 - 1
CCAGGGUGUGCCCGCUUGCAAUUAAAUUGCGCCGAAUAACAAAAAGUUGAGGCGAAAACCAAAACUCAACUAAAAAGGCAUUAAAUAAAUGGAGAGCAUG
...(((....)))(((((((((...)))))((((.....)....(((((((.............))))))).....)))..............))))... ( -24.22)
>DroSim_CAF1 55332 100 - 1
CCAGGGUGUGCCCGCUUGCAAUUAAAUUGCGCCGAAUAACAAAAAGUUGAGGCGAAAACCAAAACUCAACUAAAAAGGCAUUAAAUAAAUGGAGAGCAUG
...(((....)))(((((((((...)))))((((.....)....(((((((.............))))))).....)))..............))))... ( -24.22)
>DroEre_CAF1 58401 100 - 1
CAUGGGUGUGCCCGCUUGCAAUUAAAUUGCGCCGAAUAACAAAAAGUAAAGACGAAAACCAAAACUCAACUAAAAAAGCAUUAAAUAAAUGGAGAGCAUG
...(((....)))(((((((((...)))))................................................((((.....))))..))))... ( -13.10)
>DroYak_CAF1 57867 100 - 1
CAAGGGUGUGCCCGCUUGCAAUUAAAUUGCGCCGAAUAACAAAAAGUAAAGACGAAAACCAAAACUCAACUAAAAAGGCAUUAAAUAAAUGGAGAGCAUG
...(((....)))(((((((((...)))))(((............((....))((..........)).........)))..............))))... ( -16.30)
>consensus
CAAGGGUGUGCCCGCUUGCAAUUAAAUUGCGCCGAAUAACAAAAAGUAGAGGCGAAAACCAAAACUCAACUAAAAAGGCAUUAAAUAAAUGGAGAGCAUG
...(((....)))(((((((((...)))))((((.....)....(((.(((.............))).))).....)))..............))))... (-16.62 = -17.22 +   0.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:10:03 2006