Locus 4260

Sequence ID 3R_DroMel_CAF1
Location 11,394,600 – 11,394,720
Length 120
Max. P 0.567402
window6915

overview

Window 5

Location 11,394,600 – 11,394,720
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 93.08
Mean single sequence MFE -27.12
Consensus MFE -21.38
Energy contribution -21.86
Covariance contribution 0.48
Combinations/Pair 1.08
Mean z-score -1.50
Structure conservation index 0.79
SVM decision value 0.07
SVM RNA-class probability 0.567402
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11394600 120 + 27905053
GGAGACGGGCUAAGUGCAGGAGAGUGAGGAUGUGUUGAAGGGACAACCUCAAGCCGCAGAGUUAAAAAAGCUGUGCUGGGGACACACGAGAAUAUGCAAAUUGAAAGGCAAAUAAAAUUA
(....)..(((...((((((....(((((.(((.(.....).))).)))))..))(((.((((.....)))).)))((....))..........))))........)))........... ( -28.20)
>DroSec_CAF1 142366 120 + 1
UGUGACGAGCUAAGUGUAGGAGAGUGGGGAUGUGUUGAAGGGACAACCUCAAGCCGCAGAGUUAAAAAAGCUGUGCUGGGGACACACGAGAAUAUGCAAAUUGAAAGGCAAAUAAAAUUA
........(((..((((.((....(((((.(((.(.....).))).)))))..))(((.((((.....)))).))).....)))).(((...........)))...)))........... ( -25.30)
>DroSim_CAF1 133435 120 + 1
GGUGACGAGCAAAGUGCAGGAGAGUGAGAAUGUGUUGAAGGGACAACCUCAAGCCGCAGAGUUAAAAAAGCUGUGCUGGGGACACACGAGAAUAUGCAAAUUGAAAGGCAAAUAAAAUUA
(....)...(((..((((.....(((.....(.(((..(((.....)))..))))(((.((((.....)))).)))((....))))).......))))..)))................. ( -25.30)
>DroEre_CAF1 130654 120 + 1
GGCGACGGGCCAAGUGCAGGAGAGCGAGGAAGUGUUGGAGGGACAACCUCAAGCCGCAGAGUUAAAAAAGCUGUGCUGGGGACACACGAGAGUAUGCAAAUUGAAAGGCAAAUAAAAUUA
(((.....)))...((((.............(((((.((((.....))))...(((((.((((.....)))).))).)).)))))((....)).))))...................... ( -31.20)
>DroYak_CAF1 133268 120 + 1
GGAGAGUGAGGAUGUGCAGGAGAGUGAGGAUGUGUUGAAGGGACAACCUCAAGCCACAGAGUUAAAAAAGCUGUGCUGGCGACACACGAGAAUAUGCAAAUUGAAAGGCAAAUAAAAUUA
..........(((.((((......(((((.(((.(.....).))).))))).((((((.((((.....)))).)).))))..............)))).))).................. ( -25.60)
>consensus
GGAGACGGGCUAAGUGCAGGAGAGUGAGGAUGUGUUGAAGGGACAACCUCAAGCCGCAGAGUUAAAAAAGCUGUGCUGGGGACACACGAGAAUAUGCAAAUUGAAAGGCAAAUAAAAUUA
..............(((.((....(((((.(((.(.....).))).)))))..))(((.((((.....))))(((.((....))))).......)))..........))).......... (-21.38 = -21.86 +   0.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:23:48 2006