Locus 7510

Sequence ID	3L_DroMel_CAF1
Location	20,184,133 – 20,184,347
Length	214
Max. P	0.956463

overview

Window 4

Location	20,184,133 – 20,184,228
Length	95
Sequences	5
Columns	95
Reading direction	forward
Mean pairwise identity	93.89
Mean single sequence MFE	-24.86
Consensus MFE	-20.42
Energy contribution	-20.66
Covariance contribution	0.24
Combinations/Pair	1.07
Mean z-score	-1.82
Structure conservation index	0.82
SVM decision value	1.09
SVM RNA-class probability	0.914024
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20184133 95 + 23771897
CCGAAAAACUCGUAAAGAGCAGCUCCUCGGAGUUCUUGUUUCUGGUGUUUUCUUAGCACGAAAUGCCAAUUUAGAGUCAUUUAAAUUGGGUAGAA
.(((.....)))....(((.(((((....))))))))..((((((((((.....)))))......((((((((((....)))))))))).))))) ( -23.70)
>DroSec_CAF1 16544 95 + 1
ACGAAAAACUCGUAAAGAGCAGCUCCUUGGAGCUCUUGUUUCUGGUGUUUUCUUAGCACGAAAUGCCAAUUUCGAGUCAUUUAAAUUGGGUAGAA
((((.....))))...(((.(((((....))))))))..((((((((((.....)))))......(((((((.((....)).))))))).))))) ( -24.00)
>DroSim_CAF1 17612 95 + 1
ACGAAAAACUCGUAAAGAGCAGCUCCUUGGAGCUCUUGUUUCUGGUGUUUUCUUAGCACGAAAUGCCAAUUUCGAGUCAUUUAAAUUGGGUAGAA
((((.....))))...(((.(((((....))))))))..((((((((((.....)))))......(((((((.((....)).))))))).))))) ( -24.00)
>DroEre_CAF1 17115 94 + 1
CCAAA-AAUUCGUAAGGAACAGCUCCUUGGAGUUCUUGUUCCUGGUGUUUUCUCAGCACGAAAUGCCAAUUUAGAGUCAUUUAAAUUGGGUAGAA
.....-..(((((.(((((((((((....))))...)))))))(.((......)).))))))...((((((((((....))))))))))...... ( -28.30)
>DroYak_CAF1 16409 95 + 1
CCAAAAAACUCGUAAAGAGCAGCUCCUUGGAGUUCUUGUUUCUGGUGUUUUCUCAUCACGAAAUGCCAAUUUAGAGUCAUUUAAAUUGGGUAGAA
................(((.(((((....))))))))((((((((((......))))).))))).((((((((((....))))))))))...... ( -24.30)
>consensus
CCGAAAAACUCGUAAAGAGCAGCUCCUUGGAGUUCUUGUUUCUGGUGUUUUCUUAGCACGAAAUGCCAAUUUAGAGUCAUUUAAAUUGGGUAGAA
........(((.....))).(((((....))))).....((((((((((.....)))))......((((((((((....)))))))))).))))) (-20.42 = -20.66 +   0.24)

alignment

secondary structure

dotplot

Window 5

Location	20,184,228 – 20,184,347
Length	119
Sequences	5
Columns	119
Reading direction	forward
Mean pairwise identity	91.83
Mean single sequence MFE	-32.40
Consensus MFE	-28.16
Energy contribution	-27.56
Covariance contribution	-0.60
Combinations/Pair	1.16
Mean z-score	-1.70
Structure conservation index	0.87
SVM decision value	1.47
SVM RNA-class probability	0.956463
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20184228 119 + 23771897
AGUUGCGGCAAGAAAAGUCUGCCCACAGUCCACAAUGUUGGCUCGAAUUAAGUCGGGUGUUCGAAAGUUUUGUUGCCAGUCGACGGAAAUCGGACUAAAACCGAAAAGCAAUUAACUUA
(((((((((((.((((....(((.(((........))).)))((((((..........))))))...)))).)))))............((((.......))))...))))))...... ( -31.30)
>DroSec_CAF1 16639 119 + 1
AGUUGCGGCAAGGAAAGUCUGCCCACAGUCCACAAUGUUGGCUUGAAUUAAGUCGAGUGUGCGAAAGUUUCGUUGCCAGUCGACGGAAAUCGGACUAAAACCAAAAAGCAAUUAACUUA
((((((.....((..((((((((.(((........))).)))..((.((..(((((.((.((((........)))))).)))))..)).)))))))....)).....))))))...... ( -33.60)
>DroSim_CAF1 17707 119 + 1
AGUUGCGGCAAGGAAAGUCUGCCCACAGUCCACAAUGUUGGCUCGAAUUAAGUCGAGUGUGCGAAAGUUUCGUUGCCAGUCGACGGAAAUCGGACUAAAACCAAAAAGCAAUUAACUUA
((((((.....((..((((.(((.(((........))).))).(((.((..(((((.((.((((........)))))).)))))..)).)))))))....)).....))))))...... ( -34.30)
>DroEre_CAF1 17209 116 + 1
AGUUGCGGUAAG---AUUUUCCCCACAGUCAACAAUGUUGGCUCGAAUUAAGUCGAGUGUACGAAAGUUUCGUUGCCAGUCGACGGAAAUCGGACUAAAACCAAAAGGCAAUUAACUUA
((((((.....(---((((((.....(((((((...)))))))........(((((.((.((((.....))))...)).))))))))))))((.......)).....))))))...... ( -31.00)
>DroYak_CAF1 16504 113 + 1
AGUUGCGGUAGG---AUUCUCCCCAAAGUCCACAAU---GGCUCGAAUUAAGUCGAGUGUGCGAAAGUUUCGUUGCCAGUCGACGGAAAUCGGACUAAAACCAAAAAGCAAUUAAUUUA
((((((.((.((---(((........)))))))..(---((..(((.((..(((((.((.((((........)))))).)))))..)).)))..)))..........))))))...... ( -31.80)
>consensus
AGUUGCGGCAAG_AAAGUCUGCCCACAGUCCACAAUGUUGGCUCGAAUUAAGUCGAGUGUGCGAAAGUUUCGUUGCCAGUCGACGGAAAUCGGACUAAAACCAAAAAGCAAUUAACUUA
((((((((..((......))..))..(((((.........((((((......))))))....((...((((((((.....)))))))).)))))))...........))))))...... (-28.16 = -27.56 +  -0.60)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:49:06 2006