Locus 238

Sequence ID X_DroMel_CAF1
Location 818,711 – 818,850
Length 139
Max. P 0.857475
window359 window360

overview

Window 9

Location 818,711 – 818,810
Length 99
Sequences 4
Columns 108
Reading direction forward
Mean pairwise identity 90.64
Mean single sequence MFE -28.62
Consensus MFE -25.83
Energy contribution -26.58
Covariance contribution 0.75
Combinations/Pair 1.00
Mean z-score -1.69
Structure conservation index 0.90
SVM decision value 0.81
SVM RNA-class probability 0.857475
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 818711 99 + 22224390
---------UCCCUUUCCCUUCCUGCUUUGUCCUGGACUGUACUGGCUGUCUGUCUUGUCCAGCAAAAAAGGGACACCCGGGGCUUGCUGCAAUUUGUUGAAUUAAUA
---------.(((......(((((..((((..((((((......(((.....)))..))))))))))..))))).....)))((.....))................. ( -23.00)
>DroSec_CAF1 20050 95 + 1
---------UCCCUUUCCCUUCCUGCUUUGUCCUGGGCUGUCCUGGCUG----UCUUGUCCAGCAAAAAAGGGACACCCGGGGCUUGCUGCAAUUUGUUGAAUUAAUA
---------..............(((...((((((((.((((((.((((----.......))))......)))))))))))))).....)))................ ( -31.40)
>DroSim_CAF1 16372 95 + 1
---------UCCCUUUCCCUUCCUGCUUUGUCCUGGGCUGUCCUGGCUG----UCUUGUCCAGCAAAAAAGGGACACCCGGGGCUUGCUGCAAUUUGUUGAAUUAAUA
---------..............(((...((((((((.((((((.((((----.......))))......)))))))))))))).....)))................ ( -31.40)
>DroEre_CAF1 20197 103 + 1
CAUUCCCAUUCCCAUUCCCGUCCUGCUUUGUCCUGGGCUGUCC-GGCUG----UCUUGUCCAGCAAAAAAGGGACACCCGGGGCUUACUGCAAUUUGUUGAAUUAAUA
.............((((.((...(((...((((((((.(((((-.((((----.......)))).......))))))))))))).....)))...))..))))..... ( -28.70)
>consensus
_________UCCCUUUCCCUUCCUGCUUUGUCCUGGGCUGUCCUGGCUG____UCUUGUCCAGCAAAAAAGGGACACCCGGGGCUUGCUGCAAUUUGUUGAAUUAAUA
.......................(((...((((((((.((((((.((((...........))))......)))))))))))))).....)))................ (-25.83 = -26.58 +   0.75) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 818,730 – 818,850
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 95.34
Mean single sequence MFE -33.35
Consensus MFE -30.88
Energy contribution -31.50
Covariance contribution 0.63
Combinations/Pair 1.06
Mean z-score -1.48
Structure conservation index 0.93
SVM decision value 0.13
SVM RNA-class probability 0.597224
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 818730 120 + 22224390
UGUCCUGGACUGUACUGGCUGUCUGUCUUGUCCAGCAAAAAAGGGACACCCGGGGCUUGCUGCAAUUUGUUGAAUUAAUAACAACACUCAGUCCUUUGAAAAUUGAAUUUAUAGAGUGAA
.(((((((........(((.....))).(((((..........))))).)))))))..........((((((......))))))(((((.((..((..(...)..))...)).))))).. ( -25.10)
>DroSec_CAF1 20069 116 + 1
UGUCCUGGGCUGUCCUGGCUG----UCUUGUCCAGCAAAAAAGGGACACCCGGGGCUUGCUGCAAUUUGUUGAAUUAAUAACAACACUCAGUGCUUUGAAAAUUGAAUUUAGAGAGUGAA
.((((((((.((((((.((((----.......))))......))))))))))))))..((((....((((((......))))))....)))).(((((((.......)))))))...... ( -37.10)
>DroSim_CAF1 16391 116 + 1
UGUCCUGGGCUGUCCUGGCUG----UCUUGUCCAGCAAAAAAGGGACACCCGGGGCUUGCUGCAAUUUGUUGAAUUAAUAACAACACUCAGUGCUUUGAAAAUUGAAUUUAGAGAGUGAA
.((((((((.((((((.((((----.......))))......))))))))))))))..((((....((((((......))))))....)))).(((((((.......)))))))...... ( -37.10)
>DroEre_CAF1 20225 115 + 1
UGUCCUGGGCUGUCC-GGCUG----UCUUGUCCAGCAAAAAAGGGACACCCGGGGCUUACUGCAAUUUGUUGAAUUAAUAACAACACUCAGUGCUUUGGAAAUUGAAUUUAGAGAGUGAA
.((((((((.(((((-.((((----.......)))).......))))))))))))).(((((....((((((......))))))....)))))(((((((.......)))))))...... ( -34.10)
>consensus
UGUCCUGGGCUGUCCUGGCUG____UCUUGUCCAGCAAAAAAGGGACACCCGGGGCUUGCUGCAAUUUGUUGAAUUAAUAACAACACUCAGUGCUUUGAAAAUUGAAUUUAGAGAGUGAA
.((((((((.((((((.((((...........))))......))))))))))))))..((((....((((((......))))))....)))).(((((((.......)))))))...... (-30.88 = -31.50 +   0.63) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:39:42 2006