Locus 3857

Sequence ID 3R_DroMel_CAF1
Location 10,505,906 – 10,506,003
Length 97
Max. P 0.781275
window6178

overview

Window 8

Location 10,505,906 – 10,506,003
Length 97
Sequences 5
Columns 103
Reading direction forward
Mean pairwise identity 75.43
Mean single sequence MFE -16.26
Consensus MFE -8.79
Energy contribution -9.39
Covariance contribution 0.60
Combinations/Pair 1.00
Mean z-score -1.85
Structure conservation index 0.54
SVM decision value 0.56
SVM RNA-class probability 0.781275
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10505906 97 + 27905053
GAUCAGGUACAA---C-AAAUCGAGAUUCCUGCCUACUCACUUUUAUUUAUUUGGCAAAGGAUUUCGAUAUUUGCCGUAUCCUCAAAUCCCCUUCUCUAUC--
(((.((((((..---(-((((((((((((.((((...................))))..))))))))))..)))..))).)))...)))............-- ( -19.81)
>DroSec_CAF1 154563 81 + 1
GAUCAGGUACAA---C-AAAUCGACAUUCCUGCCUACUCACUUUUAUUUAUUUGGCAAAGGAUUUCGAUA---------------AAUCU-CUCCUUUACC--
....(((.....---.-..(((((...(((((((...................)))..))))..))))).---------------.....-..))).....-- ( -13.60)
>DroSim_CAF1 52477 82 + 1
GAUCAGGUACAA---C-AAAUCGACAUUCCUGCCUACUCACUUUUAUUUAUUUGGCAAAGGAUUUCAAUA---------------AAUCCCCUCCUUUACC--
.....((((...---.-.............((((...................))))..((((((....)---------------))))).......))))-- ( -10.61)
>DroEre_CAF1 52858 89 + 1
GAUCAGGUACAA---C-AAAUCGACAUUCCUGCCUACUCACUUU-GGUUAUUUGGCAAAGGAUUUCGAUAUUUGCCUUACGCUCAAAUCCCCU---------U
....(((((...---.-..(((((...(((((((.....((...-.)).....)))..))))..)))))...)))))................---------. ( -15.90)
>DroYak_CAF1 52762 102 + 1
GAUCAGGCAUCCUGUCAGGAUCGACAUUCCUGCCUACUCACUUU-GGUUAUUUGGCAAAGGAUUCCAAUAUUUGCCAUACCCUCAAAUCCACUCCCUAGCCCA
((..(((((...((((......))))....)))))..)).....-(((....(((((((...........))))))).)))...................... ( -21.40)
>consensus
GAUCAGGUACAA___C_AAAUCGACAUUCCUGCCUACUCACUUUUAUUUAUUUGGCAAAGGAUUUCGAUAUUUGCC_UA__CUCAAAUCCCCUCCUUUACC__
...................(((((...(((((((...................)))..))))..))))).................................. ( -8.79 =  -9.39 +   0.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:11:46 2006