Locus 4335

Sequence ID 3R_DroMel_CAF1
Location 11,457,157 – 11,457,273
Length 116
Max. P 0.951156
window7086

overview

Window 6

Location 11,457,157 – 11,457,273
Length 116
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 96.33
Mean single sequence MFE -29.38
Consensus MFE -26.09
Energy contribution -26.69
Covariance contribution 0.60
Combinations/Pair 1.00
Mean z-score -1.67
Structure conservation index 0.89
SVM decision value 1.41
SVM RNA-class probability 0.951156
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11457157 116 - 27905053
UCAGACAGCAACUGCAAUUGCAUUCGCACAAAGGACGGAAAAGAACUGCCAAAAAGCCGAAUGACAUGUGAAAAUAUGCAAAUAUCAAAAGUGA----AUGGGUCUGGGACCGGUCUGGC
((((((.((....)).....(((((((.....((.(((.......)))))...........((.(((((....)))))))..........))))----)))((((...)))).)))))). ( -30.30)
>DroSec_CAF1 189683 120 - 1
UCAGACAGCCACUGCAAUUGCAUUCGCACAAAGGACGGAAAAGAACUGCCAAAAAGCCGAAUGACAUGUGAAAAUAUGCAAAUAUCAAAAGUGAAUGAAUGGGUCUGGGACCGGUCUGGC
((((((..((...((.....(((((((.....((.(((.......)))))...........((.(((((....)))))))..........))))))).....))...))....)))))). ( -29.80)
>DroSim_CAF1 184767 120 - 1
UCAGACAGCAACUGCAAUUGCAUUCGCACAAAGGACGGAAAAGAACUGCCAAAAAGCCGAAUGACAUGUGAAAAUAUGCAAAUAUCAAAAGUGAAUGAAUGGGUCUGGGACCGGUCUGGC
((((((.((....)).....(((((((.....((.(((.......)))))...........((.(((((....)))))))..........)))))))....((((...)))).)))))). ( -30.10)
>DroEre_CAF1 178878 119 - 1
UCAGACAGCAACUGCACUUGCAUUCGCACAAAAGACGGAAAAGAAAUGCCAA-AAGCCGAAUGACAUGUGAAAAUAUGCAAAUAUCAAGAGUGAAUGAAUGGGUCUGGGACCGGUCUGGC
((((((.((....)).(...(((((((.........((...(....).))..-........((.(((((....)))))))..........)))))))...)((((...)))).)))))). ( -28.50)
>DroYak_CAF1 182762 120 - 1
UCAGACAGCAACUGCAAUUGCAUUCGCACAAAAGACGGAAAAGAAAUGCCAAAAAGCCGAAUGACAUGUGAAAAUAUGCAAAUAUCAAAAGUGAAUGAAUGGGUCUGGGACCGGUCUGGC
((((((.((....)).....(((((((.........((...(....).))...........((.(((((....)))))))..........)))))))....((((...)))).)))))). ( -28.20)
>consensus
UCAGACAGCAACUGCAAUUGCAUUCGCACAAAGGACGGAAAAGAACUGCCAAAAAGCCGAAUGACAUGUGAAAAUAUGCAAAUAUCAAAAGUGAAUGAAUGGGUCUGGGACCGGUCUGGC
((((((.((....)).....(((((((........(((..................)))..((.(((((....)))))))..........)))))))....((((...)))).)))))). (-26.09 = -26.69 +   0.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:26:33 2006