Locus 3980

Sequence ID	3L_DroMel_CAF1
Location	11,582,954 – 11,583,056
Length	102
Max. P	0.943795

overview

Window 0

Location	11,582,954 – 11,583,056
Length	102
Sequences	5
Columns	103
Reading direction	forward
Mean pairwise identity	90.81
Mean single sequence MFE	-33.24
Consensus MFE	-27.44
Energy contribution	-28.80
Covariance contribution	1.36
Combinations/Pair	1.10
Mean z-score	-1.88
Structure conservation index	0.83
SVM decision value	1.34
SVM RNA-class probability	0.943795
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11582954 102 + 23771897
ACUUCUUUGUACGAGAUGAGAUGUCGUCGCAGAAAU-UGCGACCUCAGUUGGUUCCUUUCACCAACUGAAAUGUGAGUUUUUCUUGUCUGCGGCUAGAGAAAU
..(((((((..(((((..(((....(((((((...)-)))))).(((((((((.......)))))))))............)))..))).))..))))))).. ( -36.00)
>DroSec_CAF1 78474 103 + 1
CCUUCUUUGUCCGAGAUGAGACGUGGUCGCAGAAAUAUGCGACCCCAGUUGGUUCCUUUCACCAACUGAAAUGGGAGUUUCACUUGUCUGCGGCUGGAGAUAU
...(((..(.((((((..((....(((((((......))))))).((((((((.......))))))))..............))..))).))).)..)))... ( -38.50)
>DroSim_CAF1 80230 102 + 1
CCUUCUUUGUCCGAGAUGAGAUGUCGUCGCAGAAAU-UGCGACCCCAGUUGGUUCCUUUCACCAACUGAAAUGGGAGUUUCUCUUGUCUGCGGCUAGAGAUAU
...((((((.((((((..(((.....((((((...)-)))))(((((((((((.......))))))))....)))......)))..))).))).))))))... ( -36.60)
>DroEre_CAF1 69760 101 + 1
CGUUCUUUGUCCGAGAUGAGAUGUCGUCGCAGAAAU-UGCGACCCCAC-UGGUUCCUUUCACCGACGGAAAUGGGAGUUUCUCUUGACUGCUGCUGGGGAAAU
..((((...((((.....((.((..(((((((...)-))))))..)))-)(((.......)))..))))...))))((((((((.(.(....)).)))))))) ( -26.10)
>DroYak_CAF1 84601 100 + 1
CGUUCUUUGUCCGAGAUGAGAUGUCGUCGCAGAAAU-UGCGACC-CAG-UGGUUCCUUUCACCAACCGAAAUGGGAGUUUCUCUUGACUGCGGCUAGGGAAAU
..(((((((.(((((..((((..(((((((((...)-))))))(-((.-(((((.........)))))...)))))...))))....)).))).))))))).. ( -29.00)
>consensus
CCUUCUUUGUCCGAGAUGAGAUGUCGUCGCAGAAAU_UGCGACCCCAGUUGGUUCCUUUCACCAACUGAAAUGGGAGUUUCUCUUGUCUGCGGCUAGAGAAAU
...((((((.(((((((((((....((((((......))))))..((((((((.......)))))))).............)))))))).))).))))))... (-27.44 = -28.80 +   1.36)

alignment

secondary structure

dotplot

Window 1

Location	11,582,954 – 11,583,056
Length	102
Sequences	5
Columns	103
Reading direction	reverse
Mean pairwise identity	90.81
Mean single sequence MFE	-29.96
Consensus MFE	-21.64
Energy contribution	-24.20
Covariance contribution	2.56
Combinations/Pair	1.07
Mean z-score	-1.99
Structure conservation index	0.72
SVM decision value	0.21
SVM RNA-class probability	0.636597
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11582954 102 - 23771897
AUUUCUCUAGCCGCAGACAAGAAAAACUCACAUUUCAGUUGGUGAAAGGAACCAACUGAGGUCGCA-AUUUCUGCGACGACAUCUCAUCUCGUACAAAGAAGU
((((((.....((.(((..(((...........((((((((((.......))))))))))((((((-.....))))))....)))..))))).....)))))) ( -30.60)
>DroSec_CAF1 78474 103 - 1
AUAUCUCCAGCCGCAGACAAGUGAAACUCCCAUUUCAGUUGGUGAAAGGAACCAACUGGGGUCGCAUAUUUCUGCGACCACGUCUCAUCUCGGACAAAGAAGG
...(((....(((.(((....(((.((.......(((((((((.......)))))))))(((((((......)))))))..)).)))))))))....)))... ( -34.10)
>DroSim_CAF1 80230 102 - 1
AUAUCUCUAGCCGCAGACAAGAGAAACUCCCAUUUCAGUUGGUGAAAGGAACCAACUGGGGUCGCA-AUUUCUGCGACGACAUCUCAUCUCGGACAAAGAAGG
...(((....(((.(((...((((.........((((((((((.......))))))))))((((((-.....))))))....)))).))))))....)))... ( -33.50)
>DroEre_CAF1 69760 101 - 1
AUUUCCCCAGCAGCAGUCAAGAGAAACUCCCAUUUCCGUCGGUGAAAGGAACCA-GUGGGGUCGCA-AUUUCUGCGACGACAUCUCAUCUCGGACAAAGAACG
...............(((..((((....(((((((((..........))))...-)))))((((((-.....)))))).........)))).)))........ ( -26.40)
>DroYak_CAF1 84601 100 - 1
AUUUCCCUAGCCGCAGUCAAGAGAAACUCCCAUUUCGGUUGGUGAAAGGAACCA-CUG-GGUCGCA-AUUUCUGCGACGACAUCUCAUCUCGGACAAAGAACG
..(((.....(((.((....((((..........(((((.(((.......))))-)))-)((((((-.....))))))....))))..))))).....))).. ( -25.20)
>consensus
AUUUCUCUAGCCGCAGACAAGAGAAACUCCCAUUUCAGUUGGUGAAAGGAACCAACUGGGGUCGCA_AUUUCUGCGACGACAUCUCAUCUCGGACAAAGAAGG
...(((....(((.(((...((((.........((((((((((.......))))))))))((((((......))))))....)))).))))))....)))... (-21.64 = -24.20 +   2.56)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:11:35 2006