Locus 6052

Sequence ID 3L_DroMel_CAF1
Location 16,120,286 – 16,120,442
Length 156
Max. P 0.843246
window9694 window9695

overview

Window 4

Location 16,120,286 – 16,120,402
Length 116
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 93.33
Mean single sequence MFE -19.74
Consensus MFE -15.90
Energy contribution -15.90
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -2.26
Structure conservation index 0.81
SVM decision value 0.12
SVM RNA-class probability 0.594265
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16120286 116 + 23771897
UCUCUCUCUCUUGCUGUUUUUAGUAUACCAAUCAAUCAAUCAGUCGACCGUCAUCAUUCUGUCAUCGUGAUGGUCACUGCUAUUUAUUCGCCACUUUUAUUUAUGAUACCCUUU----UU
...........(((((....)))))...............((((.(((((((((.((......)).)))))))))))))...................................----.. ( -18.30)
>DroSec_CAF1 6009 120 + 1
UCUCUCUCUCGGUCUGUUUUUAGUAUAGCAAUCAAUCAAUCAGUCGACCGUCAUCAUUCUGUCAUUGUGAUGGUCACUGCUAUUUAUUAGCCACUUUUAUUUAUGAUACCCCCUUUUUUU
..........(((.((((........))))....((((...(((.(((((((((.((......)).))))))))))))((((.....))))............))))))).......... ( -21.60)
>DroSim_CAF1 5365 120 + 1
UCUCUCUCUCGGUCUGUUUUUAGUAUACCAAUCAAUCAAUCAGUCGACCGUCAUCAUUCUGUCAUUGUGAUGGUCACUGCUAUUUAUUCGCCACUUUUAUUUAUGAUACCCCUUUUUUUU
..........((..((((...((((........(((.(((((((.(((((((((.((......)).)))))))))))))..))).))).........))))...))))..))........ ( -19.33)
>consensus
UCUCUCUCUCGGUCUGUUUUUAGUAUACCAAUCAAUCAAUCAGUCGACCGUCAUCAUUCUGUCAUUGUGAUGGUCACUGCUAUUUAUUCGCCACUUUUAUUUAUGAUACCCCUUUUUUUU
........................................((((.(((((((((.((......)).)))))))))))))......................................... (-15.90 = -15.90 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 16,120,326 – 16,120,442
Length 116
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 93.33
Mean single sequence MFE -19.25
Consensus MFE -16.83
Energy contribution -17.16
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -2.36
Structure conservation index 0.87
SVM decision value 0.76
SVM RNA-class probability 0.843246
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16120326 116 + 23771897
CAGUCGACCGUCAUCAUUCUGUCAUCGUGAUGGUCACUGCUAUUUAUUCGCCACUUUUAUUUAUGAUACCCUUU----UUUUUUCUUCGAUUUUUGCCAUAUUUAGCUUUUAUCUAUCGC
((((.(((((((((.((......)).)))))))))))))...................................----..........(((....((........))....)))...... ( -18.00)
>DroSec_CAF1 6049 120 + 1
CAGUCGACCGUCAUCAUUCUGUCAUUGUGAUGGUCACUGCUAUUUAUUAGCCACUUUUAUUUAUGAUACCCCCUUUUUUUUUUUUUGCGAUUUUAACCAUAUUUAGCUUUUAUCUAUCGC
..((((((((((((.((......)).)))))))))...((((.....)))).............)))...................(((((........................))))) ( -19.86)
>DroSim_CAF1 5405 120 + 1
CAGUCGACCGUCAUCAUUCUGUCAUUGUGAUGGUCACUGCUAUUUAUUCGCCACUUUUAUUUAUGAUACCCCUUUUUUUUUUUUUUGCGAUUUUUGCCAUAUUUAGCUUUUAUCUAUCGC
((((.(((((((((.((......)).)))))))))))))...............................................(((((....((........))........))))) ( -19.90)
>consensus
CAGUCGACCGUCAUCAUUCUGUCAUUGUGAUGGUCACUGCUAUUUAUUCGCCACUUUUAUUUAUGAUACCCCUUUUUUUUUUUUUUGCGAUUUUUGCCAUAUUUAGCUUUUAUCUAUCGC
((((.(((((((((.((......)).)))))))))))))...............................................(((((........................))))) (-16.83 = -17.16 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:08:20 2006