Locus 1952

Sequence ID 2R_DroMel_CAF1
Location 7,370,634 – 7,370,726
Length 92
Max. P 0.541796
window3228

overview

Window 8

Location 7,370,634 – 7,370,726
Length 92
Sequences 6
Columns 98
Reading direction forward
Mean pairwise identity 69.95
Mean single sequence MFE -25.60
Consensus MFE -11.90
Energy contribution -11.60
Covariance contribution -0.30
Combinations/Pair 1.53
Mean z-score -1.57
Structure conservation index 0.46
SVM decision value 0.02
SVM RNA-class probability 0.541796
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7370634 92 + 20766785
GUAUCCAACCAA--CUCGUC---AGCUA-CCCACCAGCGAAAGUUUGAUCAGCGAUAACUUGGUAACCUUUAGUUCUAUUGAAGAGUUGGUGGAUAGA
.((((((.((((--(((.((---((((.-..((..(((....)))))...)))...((((.((...))...))))....))).))))))))))))).. ( -27.70)
>DroVir_CAF1 6892 95 + 1
GCAACCAAACCCAGCCCGGACUCAUACACAACUCAAGCGA---UGCCAUCAGUCGAGAUCUGGUCACCUUCGAGUCCAUUGUCGAGUUGCAGGAGCAA
.............((((((((((..............(((---(.......)))).((...((...)).))))))))..(((......))))).)).. ( -19.20)
>DroSec_CAF1 1979 92 + 1
GUAACCAACCAA--CUCGUC---AGACA-ACCACCAGCGAAAGUGUGAUCAACGAUAACUUGGUAACCUUUAGUUCUAUUGAAGAGUUGGUGGAAAGA
....(((.((((--(((.((---((...-..(((..((....)))))(((((.......)))))..............)))).))))))))))..... ( -23.70)
>DroEre_CAF1 2140 92 + 1
GUAACCAACCAA--CUCGUC---AGGCA-ACCACCAGCGAAAGUGUAAUCAACGAUAACUUGGUAACUUUCAGUUCUAUUGAAGAGUUGGUGGAAAGA
....(((.((((--(((.((---((((.-.......))((((((...(((((.......))))).)))))).......)))).))))))))))..... ( -27.10)
>DroYak_CAF1 5138 92 + 1
GUAGCCAACCAA--CUCGUC---AGGCA-ACCACCAGCGAAGGUGUGAUCAACGAAAACUUGGUAACUUUUAGUUCUAUUGAGGAGUUGGUUGAAAGA
.....(((((((--(((.((---((((.-.......))((((((...(((((.......))))).)))))).......)))).))))))))))..... ( -28.60)
>DroMoj_CAF1 3041 95 + 1
GCAGCCAGACACCGCACGGCGCCGUACACAACUCCAGUGA---UGCUAUCAGCCGAGAUCUGGUCACAUUCGAGUCCAUUGUCGAGCUGCAGGAGCAG
(((((..((((.....((((...((((((.......))).---))).....)))).....(((.(........).))).))))..)))))........ ( -27.30)
>consensus
GUAACCAACCAA__CUCGUC___AGACA_ACCACCAGCGAAAGUGUGAUCAACGAAAACUUGGUAACCUUCAGUUCUAUUGAAGAGUUGGUGGAAAGA
..............................((((((((.........(((((.......)))))...((((((.....)))))).))))))))..... (-11.90 = -11.60 +  -0.30)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:17:11 2006