Locus 1126

Sequence ID	3R_DroMel_CAF1
Location	3,390,872 – 3,390,991
Length	119
Max. P	0.847565

overview

Window 4

Location	3,390,872 – 3,390,991
Length	119
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	92.38
Mean single sequence MFE	-33.72
Consensus MFE	-28.92
Energy contribution	-30.16
Covariance contribution	1.24
Combinations/Pair	1.08
Mean z-score	-1.25
Structure conservation index	0.86
SVM decision value	0.09
SVM RNA-class probability	0.578034
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3390872 119 + 27905053
-GGGUGUAGGCCGACAUCGUUUUUCUAUUGGCUCUCGGAGGGAUAACUACAUAAAACUGUUACCUAAGCAACCUGCUGCACAAAGUUAUGCCCUCCGCCUCCGAACAGGAAGGCAAUUUA
-.(((((......)))))((((((((.((((....((((((((((((((((......))).......(((......)))....)))))).)))))))...))))..))))))))...... ( -35.50)
>DroSec_CAF1 14704 119 + 1
-GGGUGUAGGCCGACAUCGUUUUUCUAUUGGCUCUCGGAGGGAUAACUACAUAAAACUGUUACCUAAGCAACCUGCUGCACAAAGUUAUGCCCUCCGCCUCCGAACAGGAAGGCAAUUUA
-.(((((......)))))((((((((.((((....((((((((((((((((......))).......(((......)))....)))))).)))))))...))))..))))))))...... ( -35.50)
>DroAna_CAF1 22961 117 + 1
GGCAUGUAGGCCGACAUCGUUUUCCUAUUGGCCUUCCGAGGGAUAACUACAUAAAACUGUUACCUAAGCAACCUGCUGCACAAAGUUAUGCC---UGGCCCCCAGAAGGAAAGCAAUUUG
(((......)))......((((((((.((((....((.(((.(((((((((......))).......(((......)))....)))))).))---)))...)))).))))))))...... ( -33.70)
>DroSim_CAF1 15570 119 + 1
-GGGUGUAGGCCGACAUCGUUUUUCUAUUGGCUCUCGGAGGGAUAACUACAUAAAACUGUUACCUAAGCAACCUGCUGCACAAAGUUAUGCCCUCCGCCUCCGAACAGGAAGGCAAUUUA
-.(((((......)))))((((((((.((((....((((((((((((((((......))).......(((......)))....)))))).)))))))...))))..))))))))...... ( -35.50)
>DroEre_CAF1 14672 119 + 1
-GGACGUAGGCCGACAUCGUUUUUCUAUUGGCUCUCGGAGGGAUAACUACAUAAAACUGUUACCUAAGCAACCUGCUGCACAAAGUUAUGCCCCCCGACUCCGAAGCGGAAGGCAAUUUA
-........(((....(((((((......((...((((.((((((((((((......))).......(((......)))....)))))).))).))))..)))))))))..)))...... ( -28.40)
>consensus
_GGGUGUAGGCCGACAUCGUUUUUCUAUUGGCUCUCGGAGGGAUAACUACAUAAAACUGUUACCUAAGCAACCUGCUGCACAAAGUUAUGCCCUCCGCCUCCGAACAGGAAGGCAAUUUA
..(((((......)))))((((((((.((((....((((((((((((((((......))).......(((......)))....)))))).)))))))...))))..))))))))...... (-28.92 = -30.16 +   1.24)

alignment

secondary structure

dotplot

Window 5

Location	3,390,872 – 3,390,991
Length	119
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	92.38
Mean single sequence MFE	-37.62
Consensus MFE	-31.64
Energy contribution	-32.40
Covariance contribution	0.76
Combinations/Pair	1.08
Mean z-score	-1.55
Structure conservation index	0.84
SVM decision value	0.78
SVM RNA-class probability	0.847565
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3390872 119 - 27905053
UAAAUUGCCUUCCUGUUCGGAGGCGGAGGGCAUAACUUUGUGCAGCAGGUUGCUUAGGUAACAGUUUUAUGUAGUUAUCCCUCCGAGAGCCAAUAGAAAAACGAUGUCGGCCUACACCC-
......((((((......))))))((((((.((((((.((((.(((..(((((....))))).))).)))).)))))))))))).((.(((.(((.........))).)))))......- ( -39.30)
>DroSec_CAF1 14704 119 - 1
UAAAUUGCCUUCCUGUUCGGAGGCGGAGGGCAUAACUUUGUGCAGCAGGUUGCUUAGGUAACAGUUUUAUGUAGUUAUCCCUCCGAGAGCCAAUAGAAAAACGAUGUCGGCCUACACCC-
......((((((......))))))((((((.((((((.((((.(((..(((((....))))).))).)))).)))))))))))).((.(((.(((.........))).)))))......- ( -39.30)
>DroAna_CAF1 22961 117 - 1
CAAAUUGCUUUCCUUCUGGGGGCCA---GGCAUAACUUUGUGCAGCAGGUUGCUUAGGUAACAGUUUUAUGUAGUUAUCCCUCGGAAGGCCAAUAGGAAAACGAUGUCGGCCUACAUGCC
......((...(((((((((((...---.((((((..(((((((((.....)))...)).))))..))))))......)))))))))))....((((....((....)).))))...)). ( -34.50)
>DroSim_CAF1 15570 119 - 1
UAAAUUGCCUUCCUGUUCGGAGGCGGAGGGCAUAACUUUGUGCAGCAGGUUGCUUAGGUAACAGUUUUAUGUAGUUAUCCCUCCGAGAGCCAAUAGAAAAACGAUGUCGGCCUACACCC-
......((((((......))))))((((((.((((((.((((.(((..(((((....))))).))).)))).)))))))))))).((.(((.(((.........))).)))))......- ( -39.30)
>DroEre_CAF1 14672 119 - 1
UAAAUUGCCUUCCGCUUCGGAGUCGGGGGGCAUAACUUUGUGCAGCAGGUUGCUUAGGUAACAGUUUUAUGUAGUUAUCCCUCCGAGAGCCAAUAGAAAAACGAUGUCGGCCUACGUCC-
...((((.((((((...)))).((((((((.((((((.((((.(((..(((((....))))).))).)))).)))))))))))))).)).))))........(((((......))))).- ( -35.70)
>consensus
UAAAUUGCCUUCCUGUUCGGAGGCGGAGGGCAUAACUUUGUGCAGCAGGUUGCUUAGGUAACAGUUUUAUGUAGUUAUCCCUCCGAGAGCCAAUAGAAAAACGAUGUCGGCCUACACCC_
......((((((......))))))((((((.((((((.((((.(((..(((((....))))).))).)))).))))))))))))....(((.(((.........))).)))......... (-31.64 = -32.40 +   0.76)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:01:36 2006