Locus 486

Sequence ID 2L_DroMel_CAF1
Location 1,439,477 – 1,439,578
Length 101
Max. P 0.716972
window778

overview

Window 8

Location 1,439,477 – 1,439,578
Length 101
Sequences 4
Columns 117
Reading direction forward
Mean pairwise identity 86.79
Mean single sequence MFE -28.40
Consensus MFE -21.38
Energy contribution -21.19
Covariance contribution -0.19
Combinations/Pair 1.05
Mean z-score -1.71
Structure conservation index 0.75
SVM decision value 0.39
SVM RNA-class probability 0.716972
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1439477 101 + 22407834
CCCUUGUCGCCGAGAAUAAACAUCGUAAUUGCGAGUUUGUGUGGGCGACACAGCAUCAACAUGAACUGGGAACACCACU--------------GAACU--GAAAUACCAGAUGAACC
....(((((((.(..((((((.((((....)))))))))).).)))))))(((..((.....))..(((.....)))))--------------)..((--(......)))....... ( -27.10)
>DroSec_CAF1 57466 100 + 1
CCCUUGUCGCCGAGAAUAAACAUCGUAAUUGCGAGUUUGUGUGGGCGACACAGCAUCAACAUGAACUG-GAACACCACU--------------GAACU--GAAAUACCAGAUGAACC
....(((((((.(..((((((.((((....)))))))))).).)))))))(((..((.....))..((-(....)))))--------------)..((--(......)))....... ( -25.80)
>DroEre_CAF1 59798 100 + 1
CCCUUGUCGCCGAGAAUAAACAUCGUAAUUGCGAGUUUGUGUGGGCGACACAACAUCAACAUGAACUG-GAACACCACG--------------GCACU--GAGAUGCCAGAUGAACC
....(((((((.(..((((((.((((....)))))))))).).)))))))...((((.........((-(....))).(--------------(((..--....)))).)))).... ( -32.60)
>DroYak_CAF1 59023 114 + 1
CCCUUGUCGCCGAGAGUAAACAUCGUAAUUGCGAGUUUGUGUGGGCGACACAACAUCAACAUGAACUG-GAACACCAGAACUCCAAAGCUACAGAACUAUUAGAUG--AGAUGAACC
....(((((((.(.(.(((((.((((....)))))))))).).)))))))...((((........(((-(....))))..........(((.........)))...--.)))).... ( -28.10)
>consensus
CCCUUGUCGCCGAGAAUAAACAUCGUAAUUGCGAGUUUGUGUGGGCGACACAACAUCAACAUGAACUG_GAACACCACU______________GAACU__GAAAUACCAGAUGAACC
....(((((((.(..((((((.((((....)))))))))).).)))))))...((((....................................................)))).... (-21.38 = -21.19 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:37:18 2006