Locus 4397

Sequence ID 3R_DroMel_CAF1
Location 11,630,295 – 11,630,403
Length 108
Max. P 0.613309
window7182

overview

Window 2

Location 11,630,295 – 11,630,403
Length 108
Sequences 5
Columns 114
Reading direction reverse
Mean pairwise identity 88.13
Mean single sequence MFE -30.10
Consensus MFE -22.44
Energy contribution -23.72
Covariance contribution 1.28
Combinations/Pair 1.16
Mean z-score -1.66
Structure conservation index 0.75
SVM decision value 0.16
SVM RNA-class probability 0.613309
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11630295 108 - 27905053
AAACAGACGCUAUUUGGAGGGUGGUUUCUAUAU------UGAUUGCGGCAAGUGCCGCGAAUCAGCGCUUUCGAUUUCUCACCUUUCGUGGAACUCGGCUUUUGUUUAUAACUU
(((((((.(((.....(((((((.........(------((((((((((....))))).)))))))))))))((.(((.(((.....)))))).))))).)))))))....... ( -33.60)
>DroSec_CAF1 11506 106 - 1
AAACAGACGCUUUUUGGAGGGUGGUUUCUAUAU------UGAUUGCGGCCAGUGCCGCAACUCAGCGCUUUCGAUUUCUCACCUUUU--GGAACUCGGCUUUUGUUUAUAACUU
(((((((.((((((..((((((((........(------((((((((((....))))))).))))((....)).....)))))))).--.)))...))).)))))))....... ( -34.20)
>DroSim_CAF1 8798 108 - 1
AAACAGACGCUUUUUGGAGGGUGGUUUCUAUAU------UGAUUGCGGCCAGUGCCGCAACUCAGCGCUUUCGAUUUCUCACCUUUUGUGGAACUCGGCUUAUGUUUAUAACUU
(((((...(((.....(((((((.........(------((((((((((....))))))).)))))))))))((.(((.(((.....)))))).)))))...)))))....... ( -29.50)
>DroEre_CAF1 8999 114 - 1
AAACAGACGCUUCUUGGAGGGUGGUUUAUAUAUAUAUAAUCAAUAUAGCAAGUGCCGCAAAUCGCCGCUUUCGAUUUCUUACCUUUUGUGGAACGCGGCUUUUGUUUAUAACUU
(((((((.........((..(((((.......(((((.....)))))......)))))...))(((((.(((.((............)).))).))))).)))))))....... ( -26.32)
>DroYak_CAF1 11580 108 - 1
AAACAGACGCUUUUUGGAGGGUGGUUUCUACAU------UGAUUGGAGCUAGUGCCGCAAGUCACCGCUUUCGAUUUCUCACCUUUUGUGGCACUCAGCAUUUGUUUAUAACUU
(((((((((((((....))))))..........------........((((((((((((((.......................))))))))))).))).)))))))....... ( -26.90)
>consensus
AAACAGACGCUUUUUGGAGGGUGGUUUCUAUAU______UGAUUGCGGCAAGUGCCGCAAAUCAGCGCUUUCGAUUUCUCACCUUUUGUGGAACUCGGCUUUUGUUUAUAACUU
(((((((.(((.....(((((((((....))........((((((((((....))))))).))).)))))))((.(((.(((.....)))))).))))).)))))))....... (-22.44 = -23.72 +   1.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:28:06 2006