Locus 4272

Sequence ID 3L_DroMel_CAF1
Location 12,510,642 – 12,510,740
Length 98
Max. P 0.566716
window6601

overview

Window 1

Location 12,510,642 – 12,510,740
Length 98
Sequences 6
Columns 102
Reading direction forward
Mean pairwise identity 78.36
Mean single sequence MFE -23.68
Consensus MFE -16.04
Energy contribution -16.32
Covariance contribution 0.28
Combinations/Pair 1.19
Mean z-score -1.16
Structure conservation index 0.68
SVM decision value 0.07
SVM RNA-class probability 0.566716
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12510642 98 + 23771897
GGUAAUUAACUUUUCACGGAGAU--CUCUUU--AGCUGAUAACUUACCCAGAGUUCUCCUCCAUUGCUGGCCACAGCCACCAUUUGGUGUCCACUUCUGGGC
.................(((((.--((((..--................)))).))))).(((.((.((((....)))).))..))).(((((....))))) ( -22.87)
>DroSec_CAF1 1180 98 + 1
AGUAAAUAACUUUACACGGAGAU--CUCCUU--AGCUGAUAACUUACCCAGAGUUCUCCUCCAUUGCUGGCCACCGCCACCAUUUGGUGUCCACUUCUGGGC
.(((((....)))))..(((...--.)))..--.............(((((((.......(((.((.((((....)))).))..))).......))))))). ( -24.34)
>DroSim_CAF1 1179 98 + 1
GGUAACUAACUUUCCACGGAGAU--CUCUUU--AGCUGAUAACUUACCCAGAGUUCUCCUCCAUUGCUGGCCACCGCCACCAUUUGGUGUCCACUUCUGGGC
.................(((((.--((((..--................)))).))))).(((.((.((((....)))).))..))).(((((....))))) ( -22.77)
>DroEre_CAF1 1179 99 + 1
GCUAA-UAACUUUUCAUAGAGAUAGGGAUUU--UAUGGAUAACUUACCCAGAGUUCUCCUCCAUUGCUGGCCACAGCCACCAUUUGGUGUCCACUUCUGGGC
.....-......(((((((((.......)))--)))))).......(((((((............((((....))))((((....)))).....))))))). ( -24.20)
>DroYak_CAF1 1179 99 + 1
GAUAA-UAACUUUUCAUACACAAAGGUGGUU--UAUUGAUAACUUACCCAGAGUUCACCUCCAUUGCUGGCCACAGCCACCAUUUGGUGUCCACUUCUGGGC
(((((-..((((((.......))))))...)--)))).........((((((((.((((.....((.((((....)))).))...))))...)).)))))). ( -25.90)
>DroPer_CAF1 1200 97 + 1
UACGAUCAACUGUUUU-G--GAU--UAAUUAAAGGCUGUGGACAUACCCACAAUUCUCCACCGUUGCUUGCCAGGGAAACCAUUUGAUGGCCGCUUCGUGGG
...........(((((-.--...--......)))))(((((......))))).....((((.(..((..((((((....))......)))).))..))))). ( -22.00)
>consensus
GGUAA_UAACUUUUCACGGAGAU__CUCUUU__AGCUGAUAACUUACCCAGAGUUCUCCUCCAUUGCUGGCCACAGCCACCAUUUGGUGUCCACUUCUGGGC
..............................................(((((((.......(((.((.((((....)))).))..))).......))))))). (-16.04 = -16.32 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:18:11 2006