Locus 5489

Sequence ID 3R_DroMel_CAF1
Location 14,461,991 – 14,462,111
Length 120
Max. P 0.819252
window8954

overview

Window 4

Location 14,461,991 – 14,462,111
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 93.70
Mean single sequence MFE -25.64
Consensus MFE -21.53
Energy contribution -22.60
Covariance contribution 1.06
Combinations/Pair 1.04
Mean z-score -1.97
Structure conservation index 0.84
SVM decision value 0.67
SVM RNA-class probability 0.819252
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14461991 120 + 27905053
CCAAAGAACUUUUGGCUUAAAUUCGAAUGGCCAAAUAAAAUUUAAUACACGGAGCACAGUUAGAAUCGAUCUCGUUGUCUCCCGAACUUUAUCGCUUGGCCAUAAGACACCCACCAAUAU
...........((((.......((..((((((((................((((.((((..(((.....)))..))))))))(((......))).))))))))..))......))))... ( -27.02)
>DroSec_CAF1 19309 118 + 1
CCAAAGAACAUUUGGCUAAAAUUCGAAUGGCCAAAUAAAAUUUAAUA--CGGAGCACAGUUAGAAUCGAUCUCGUUGUCUCCCGAACUUUAUCGCUUGGCCAUAAGACACCCACCAAAAU
..........(((((.......((..((((((((.............--.((((.((((..(((.....)))..))))))))(((......))).))))))))..))......))))).. ( -28.22)
>DroSim_CAF1 19954 118 + 1
CCAAAGAACAUUUGGCUAAAAUUCGAAUGGCCAAAUAAAAUUUAAUA--CGGAGCACAGUUAGAAUCGAUCUCGUUGUCUCCCGAACUUUAUCGCUUGGCCAUAAGACACCCACCAAUAU
(((((.....))))).......((..((((((((.............--.((((.((((..(((.....)))..))))))))(((......))).))))))))..))............. ( -27.70)
>DroYak_CAF1 21665 117 + 1
CCAAAGAACUUUUAGCUG-AAUUCGAAUGGCCAAAUAAAAUUUAAUA--CGGAAUAAAGUUAGAAUCGAUCUUGUUGCCUCCCGAACUUUAUCGCUGGGCCGUAAGACACCCACCAAUAU
.....((..((((((((.-.((((.......................--..))))..))))))))))(.(((((..((((..(((......)))..))))..))))))............ ( -19.61)
>consensus
CCAAAGAACAUUUGGCUAAAAUUCGAAUGGCCAAAUAAAAUUUAAUA__CGGAGCACAGUUAGAAUCGAUCUCGUUGUCUCCCGAACUUUAUCGCUUGGCCAUAAGACACCCACCAAUAU
...........((((.......((..((((((((................((((.((((..(((.....)))..))))))))(((......))).))))))))..))......))))... (-21.53 = -22.60 +   1.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:56:21 2006