Locus 190

Sequence ID	3R_DroMel_CAF1
Location	849,187 – 849,387
Length	200
Max. P	0.754663

overview

Window 0

Location	849,187 – 849,307
Length	120
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	97.50
Mean single sequence MFE	-29.60
Consensus MFE	-26.96
Energy contribution	-27.53
Covariance contribution	0.56
Combinations/Pair	1.03
Mean z-score	-1.82
Structure conservation index	0.91
SVM decision value	0.28
SVM RNA-class probability	0.664153
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 849187 120 - 27905053
AGACUCAGAUGAGGUUCGGAGUAUUGAAACUGGAACUCGUCAUUGUUAUGCAUAUUGUACAAUUGUUAUGUGAAAUUUAUAUUGUACACACACAAUACCUUCGAUUGUCUGAGCUACUUC
((.((((((..(...(((((((((((.(((..((.....))...)))........((((((((....((.....))....))))))))....))))).)))))))..))))))))..... ( -28.70)
>DroSec_CAF1 24878 120 - 1
AGACUCUGAUGAGGUUCGGUGUAUUGAAACUGGAACUCGUCAUUGUUAUGCAUAUUGUACAAUUGUUAUGUGAAAUUUAUAUUGUACACACACAAUACCUUCGAUUGUCUGAGCUACUUC
.(((..(((((((.((((((........)))))).)))))))..)))..((....((((((((....((.....))....))))))))((.(((((.......))))).)).))...... ( -29.70)
>DroSim_CAF1 24109 120 - 1
AGACUCUGAUGAGGUUCGGUGUAUUGAAACUGGAACUCGUCAUUGUUAUGCAUAUUGUACAAUUGUUAUGUGAAAUUUAUAUUGUACACACACAAUACCUUCGAUUGUCUGAGCUACUUC
.(((..(((((((.((((((........)))))).)))))))..)))..((....((((((((....((.....))....))))))))((.(((((.......))))).)).))...... ( -29.70)
>DroEre_CAF1 25860 120 - 1
AGACUUUGAUGAGGCUCGGUGUAUUGAAACUGGAACUCGUCAUUGUUAUGCAUAUUGUACAAUUGUUAUGUGAAAUUUAUAUUGUGCACACACAAUACAUUCGAUUGUCUGAGCUACUUC
.(((..(((((((..(((((........)))))..)))))))..)))..((....((((((((....((.....))....))))))))((.(((((.......))))).)).))...... ( -30.30)
>consensus
AGACUCUGAUGAGGUUCGGUGUAUUGAAACUGGAACUCGUCAUUGUUAUGCAUAUUGUACAAUUGUUAUGUGAAAUUUAUAUUGUACACACACAAUACCUUCGAUUGUCUGAGCUACUUC
.(((..(((((((.((((((........)))))).)))))))..)))..((....((((((((....((.....))....))))))))((.(((((.......))))).)).))...... (-26.96 = -27.53 +   0.56)

alignment

secondary structure

dotplot

Window 1

Location	849,267 – 849,387
Length	120
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	95.42
Mean single sequence MFE	-40.62
Consensus MFE	-37.74
Energy contribution	-38.30
Covariance contribution	0.56
Combinations/Pair	1.02
Mean z-score	-1.65
Structure conservation index	0.93
SVM decision value	0.48
SVM RNA-class probability	0.754663
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 849267 120 - 27905053
CUCAGUUCGGCUGAGUUUGGAUCAGUUGGGCUUCUGUCGAGUUGGUCUCCACCGGAACACUUGUGUUCUUUGUUGGGCCCAGACUCAGAUGAGGUUCGGAGUAUUGAAACUGGAACUCGU
..........((((((((((((((..(.(((....))).)..)))))((((.(((((((....))))))..).))))..)))))))))(((((.(((((..........))))).))))) ( -38.50)
>DroSec_CAF1 24958 120 - 1
UUCAGUUCGGCUGAGUUUGGAUCAGUUGGGCUUCUGUCGAGUUGGUCUCCACCGGAACACUUGUGUUCUUUGUUGGGCCCAGACUCUGAUGAGGUUCGGUGUAUUGAAACUGGAACUCGU
...(((((((((((.......)))))))))))...((((((((((.(((.((.((((((....))))))..)).))).))).)))).)))(((.((((((........)))))).))).. ( -41.00)
>DroSim_CAF1 24189 120 - 1
UUCAGUUCGGCUGAGUUUGGAUCAGUUGGGCUUCUGUCGAGUUGGUCUCCACCGGAACACUUGUGUUCUUUGUUGGGUCCAGACUCUGAUGAGGUUCGGUGUAUUGAAACUGGAACUCGU
...(((((((((((.......)))))))))))...((((((((((.(((.((.((((((....))))))..)).))).))).)))).)))(((.((((((........)))))).))).. ( -42.10)
>DroEre_CAF1 25940 120 - 1
UUCAGUUCGGCUGAGUCUGUUUCAGUUGGGCUUCUGUCGAGUUGGUCUCAACCGGAACACUUGUGUUCUUUGUUGUGCCCAGACUUUGAUGAGGCUCGGUGUAUUGAAACUGGAACUCGU
(((((((((((((((.....)))))))(((((((.((((((((((.(.((((.((((((....))))))..)))).).))).)).))))))))))))........).)))))))...... ( -40.90)
>consensus
UUCAGUUCGGCUGAGUUUGGAUCAGUUGGGCUUCUGUCGAGUUGGUCUCCACCGGAACACUUGUGUUCUUUGUUGGGCCCAGACUCUGAUGAGGUUCGGUGUAUUGAAACUGGAACUCGU
...(((((((((((.......)))))))))))...((((((((((.(((.((.((((((....))))))..)).))).))).)))).)))(((.((((((........)))))).))).. (-37.74 = -38.30 +   0.56)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:36:44 2006