Locus 9972

Sequence ID 3R_DroMel_CAF1
Location 26,689,800 – 26,689,918
Length 118
Max. P 0.790215
window15894

overview

Window 4

Location 26,689,800 – 26,689,918
Length 118
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 91.72
Mean single sequence MFE -29.87
Consensus MFE -28.60
Energy contribution -28.84
Covariance contribution 0.24
Combinations/Pair 1.04
Mean z-score -1.21
Structure conservation index 0.96
SVM decision value 0.58
SVM RNA-class probability 0.790215
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 26689800 118 + 27905053
CGCAGACAGCCGAACCCAGUAAUCAGGCCCCCGAAAUGCGGAAGUCUGCGAAUGCAUUGCGAAAACCGCUACGCAUGCGAAAAACUCGUUUUCCACCGCCCUCUUCG--UCAUCUUCCCC
(((((((.(((..............)))..(((.....)))..))))))).((((...(((.....)))...))))(((((.....((........)).....))))--).......... ( -28.94)
>DroSec_CAF1 280548 116 + 1
CGCAGACAGCCGAACCCAGUAAUCAGGCCCCCGAAAUGCGGAAGUCUGCGAAUGCAUUGCGAAAACCGCUACGCAUGCGAAAAACUCGUUUUCCACCGCCCUCUUCGCU----CCCCCCC
(((((((.(((..............)))..(((.....)))..))))))).((((...(((.....)))...))))(((((.....((........)).....))))).----....... ( -31.24)
>DroSim_CAF1 277303 120 + 1
CGCAGACAGCCGAACCCAGUAAUCAGGCCCCCGAAAUGCGGAAGUCUGCGAAUGCAUUGCGAAAACCGCUACGCAUGCGAAAAACUCGUUUUCCACCGCCCUCUUCGCUUCACCCCCACC
(((((((.(((..............)))..(((.....)))..))))))).((((...(((.....)))...))))(((((.....((........)).....)))))............ ( -31.24)
>DroEre_CAF1 296528 113 + 1
CGCAGACCGCCGAACCCAAUAAUCUGGCCCCCGAAAUGCGGAAGUCUGCGAAUGCAUUGCGAAAACCGCUACGCAUGCGAAAAACUCGUUUUCCACCGCCCUCUUCGCU-------CCCC
(((((((.((((............))))..(((.....)))..))))))).((((...(((.....)))...))))(((((.....((........)).....))))).-------.... ( -30.30)
>DroYak_CAF1 285599 120 + 1
CGCAGACAGCCAAACCCAAUAAUCAGGCCCCCGAAAUGCGGAAGUCUGCGAAUGCAUUGCGAAAACCGCUACGCAUGCGAAAAACUCGUUUUCCACCGCCUCCUCUGCUUCCACUUCCCU
(((((((.(((..............)))..(((.....)))..))))))).((((...(((.....)))...))))((((.....))))............................... ( -27.64)
>consensus
CGCAGACAGCCGAACCCAGUAAUCAGGCCCCCGAAAUGCGGAAGUCUGCGAAUGCAUUGCGAAAACCGCUACGCAUGCGAAAAACUCGUUUUCCACCGCCCUCUUCGCUUC__CCCCCCC
(((((((.(((..............)))..(((.....)))..))))))).((((...(((.....)))...))))(((((.....((........)).....)))))............ (-28.60 = -28.84 +   0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:46:04 2006