Locus 221

Sequence ID 3R_DroMel_CAF1
Location 885,540 – 885,687
Length 147
Max. P 0.932209
window399 window400

overview

Window 9

Location 885,540 – 885,660
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 85.22
Mean single sequence MFE -39.70
Consensus MFE -26.75
Energy contribution -27.53
Covariance contribution 0.78
Combinations/Pair 1.03
Mean z-score -2.64
Structure conservation index 0.67
SVM decision value 0.69
SVM RNA-class probability 0.824084
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 885540 120 - 27905053
AUUGAAGGCGGCCGAAGGUUGUCGACUGUCCGACUGCUCGCUCGGCUGCUAUCAAUGAGUGCGCUGUCAAAAUCAAAAUGCUGUGCAUUUAUGGGUACAAAUCCACGAAAUGGAAAGUAG
..(((.(((((((((.(((.((((......)))).)).)..))))))))).)))((((((((((.((............)).))))))))))...(((...((((.....))))..))). ( -40.40)
>DroSec_CAF1 53421 105 - 1
AUUGAAGGCGGCCGAAGGUUGUCGACUG------------CUCGGCUGCUGGCAAUGAGUGCUGUGCC---AUCGAAAUGCCUUGCAUUUAUGGGUACAAAUCCACGAAAUGGAAAGUAG
((((..(((((((((.((((...)))).------------.)))))))))..))))...(((((((((---....((((((...))))))...)))))...((((.....)))).)))). ( -39.50)
>DroSim_CAF1 52917 105 - 1
AUUGAAGGCGGCCGAAGGUUGUCGACUG------------CUCGGCUGCUGUCAAUGGGUGCUAUGCC---AUCGAAAUGCCUUGCAUUUCUGGGUACAAAUCCACGAAAUGGAAAGUAG
(((((.(((((((((.((((...)))).------------.))))))))).))))).(((.....)))---.......(((.((.(((((((((((....))))).)))))).)).))). ( -39.20)
>consensus
AUUGAAGGCGGCCGAAGGUUGUCGACUG____________CUCGGCUGCUGUCAAUGAGUGCUAUGCC___AUCGAAAUGCCUUGCAUUUAUGGGUACAAAUCCACGAAAUGGAAAGUAG
(((((.(((((((((.((((...))))..............))))))))).)))))...((((...((....(((((((((...)))))).(((((....))))))))...))..)))). (-26.75 = -27.53 +   0.78)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 885,580 – 885,687
Length 107
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 79.42
Mean single sequence MFE -37.87
Consensus MFE -24.15
Energy contribution -24.26
Covariance contribution 0.11
Combinations/Pair 1.04
Mean z-score -2.27
Structure conservation index 0.64
SVM decision value 1.22
SVM RNA-class probability 0.932209
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 885580 107 - 27905053
-------------GCUGAUUGAUUCUAAUUGAAAGCGGCAAUUGAAGGCGGCCGAAGGUUGUCGACUGUCCGACUGCUCGCUCGGCUGCUAUCAAUGAGUGCGCUGUCAAAAUCAAAAUG
-------------.....((((((....((((.((((((.(((((.(((((((((.(((.((((......)))).)).)..))))))))).)))))..)).)))).)))))))))).... ( -41.30)
>DroSec_CAF1 53461 105 - 1
UGUGCAGUUGACAGCUGAUUGAUUCUAAUUGAAAGCGGCAAUUGAAGGCGGCCGAAGGUUGUCGACUG------------CUCGGCUGCUGGCAAUGAGUGCUGUGCC---AUCGAAAUG
.(.(((((((((((((..(((.(((.....))).((.((........)).))))).))))))))))))------------).)(((.((.((((.....)))))))))---......... ( -37.40)
>DroSim_CAF1 52957 105 - 1
UGUGCAGUUGACAGCUGAUUGAUUCUAAUUGAAAGCGGCAAUUGAAGGCGGCCGAAGGUUGUCGACUG------------CUCGGCUGCUGUCAAUGGGUGCUAUGCC---AUCGAAAUG
.(.(((((((((((((..(((.(((.....))).((.((........)).))))).))))))))))))------------).)(((.((...........))...)))---......... ( -34.90)
>consensus
UGUGCAGUUGACAGCUGAUUGAUUCUAAUUGAAAGCGGCAAUUGAAGGCGGCCGAAGGUUGUCGACUG____________CUCGGCUGCUGUCAAUGAGUGCUAUGCC___AUCGAAAUG
.............(((..(..((....))..).)))(((((((((.(((((((((.((((...))))..............))))))))).)))))........))))............ (-24.15 = -24.26 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:38:02 2006