Locus 563

Sequence ID 2R_DroMel_CAF1
Location 2,916,840 – 2,916,936
Length 96
Max. P 0.595321
window1036

overview

Window 6

Location 2,916,840 – 2,916,936
Length 96
Sequences 6
Columns 100
Reading direction forward
Mean pairwise identity 79.71
Mean single sequence MFE -30.04
Consensus MFE -16.78
Energy contribution -17.42
Covariance contribution 0.64
Combinations/Pair 1.15
Mean z-score -1.84
Structure conservation index 0.56
SVM decision value 0.12
SVM RNA-class probability 0.595321
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 2916840 96 + 20766785
CGUCGCCACCACCGCCGCCGCCAAAACUCUU-UGGCGACUCGGCGC-UCGCAAUCAACGAAGCGUUACACAAGCCAAGU--CGGCCGCAAUGGGCCCCAA
.(..(((......((.(((((((((....))-))))((((.(((((-(((.......)).)))(.....)..))).)))--)))).))....)))..).. ( -34.20)
>DroPse_CAF1 9358 79 + 1
U---------------GCCGCCGAAACUCUUUUGGCGACUCGUCGCCCCGCAAUCAACGAAGCGUUAC-CAAGCCAAGUCUCGGCCGCAAUGAGU-----
(---------------((.(((((.(((....((((.......(((..((.......))..)))....-...))))))).))))).)))......----- ( -25.04)
>DroSec_CAF1 6085 96 + 1
CAUUGCCACCACCGCCGCCGUCAAAACUCUU-UGGCGACUCGGCGC-UCGCAAUCAACGAAGCGUUACACAAGCCAAGU--CGGCCGCAAUGGGGCCCAA
....(((.(((..((.(((((((((....))-))))((((.(((((-(((.......)).)))(.....)..))).)))--)))).))..)))))).... ( -35.80)
>DroSim_CAF1 6113 96 + 1
UGUUGCCACCACCGCCGCCGCCAAAACUCUU-UGGCGACUCGGCGC-UCGCAAUCAACGAAGCGUUACACAAGCCAAGU--CGGCCGCAAUGGGGCCCAA
....(((.(((..((.(((((((((....))-))))((((.(((((-(((.......)).)))(.....)..))).)))--)))).))..)))))).... ( -38.50)
>DroEre_CAF1 6702 83 + 1
C------------ACCGACGCUAAAACUCUU-UGGCGACUCGGCGC-UCGCAAUCAUCGGAGCAUUACACAAGCCAAGU--CGG-CGCAAUGGGGCCCAA
.------------......((((((....))-))))((((.(((((-((..........)))).((....))))).)))--)((-(.(....).)))... ( -23.30)
>DroYak_CAF1 5797 84 + 1
C------------ACCGCCGCUUAAACUCUU-GGGCGAUUUGGCGC-UCGCAAUCAACGGAGCGUUACACAAGCCAACU--CGGCCGCAAUGGGGUCCAA
.------------............((((((-((.(((.(((((((-((..........))))(.....)..))))).)--)).)))....))))).... ( -23.40)
>consensus
C____________GCCGCCGCCAAAACUCUU_UGGCGACUCGGCGC_UCGCAAUCAACGAAGCGUUACACAAGCCAAGU__CGGCCGCAAUGGGGCCCAA
................((.(((...(((....((((.....(((((.(((.......))).)))))......)))))))...))).))............ (-16.78 = -17.42 +   0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:41:44 2006