Locus 10106

Sequence ID 3R_DroMel_CAF1
Location 27,087,030 – 27,087,149
Length 119
Max. P 0.715905
window16088

overview

Window 8

Location 27,087,030 – 27,087,149
Length 119
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 70.10
Mean single sequence MFE -39.36
Consensus MFE -20.24
Energy contribution -21.52
Covariance contribution 1.28
Combinations/Pair 1.45
Mean z-score -1.68
Structure conservation index 0.51
SVM decision value 0.39
SVM RNA-class probability 0.715905
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 27087030 119 + 27905053
AUGCG-AAAUCCACACCUUUGUCCAGGCUCAUGGAGGCAGUCGUACGGGUGCCGAUCGAAGACUCGAACGCCACUGUUUUUGGCCAAUCAAGCUUGGAUCAGUUGAUCGGAGGUGUGAGU
.....-.....((((((((((((((......))))((((.((....)).))))((((.(((.((.((..((((.......))))...)).))))).)))).......))))))))))... ( -42.30)
>DroSec_CAF1 5909 119 + 1
AUGCA-AAGUCCACACCCUUGUCCAAGCUCAUGGAGGCAGUCGUGCGGGUGCCGAUUGAAAACUCCAACGCCACUCUUUUUGGCCAAUCAAGCUUGGAUCAGUUGAUCGGGGGUGUGAAG
.....-.....((((((((((((((((((..(((((.((((((.((....))))))))....)))))..((((.......))))......))))))))((....)).))))))))))... ( -48.50)
>DroSim_CAF1 5895 119 + 1
AUGCA-AAAUCCACACCCUUGUCCAAGCUCAUGGAGGCAGUCGUGCGGGUGCCGAUUGAAAACUCCAACGCCACUCUUUUUGGCCAAUCAAGCUUGGAUCAGUUGAUCGGGGGUGUGAAG
.....-.....((((((((((((((((((..(((((.((((((.((....))))))))....)))))..((((.......))))......))))))))((....)).))))))))))... ( -48.50)
>DroEre_CAF1 6222 119 + 1
GAACA-AAAUCCGAAACCUUGAUCAGUCUUAUGGAGUCAGUCGUACGGAUUCCGAUCAUAGAUUCGAACACUUCUUAUCAUGGUUUUCUUAGUUUGGAUGAGUUGAUUGACAGUCCGAAU
.....-......((((((.((((.((......((((((.(.....).))))))((........))........)).)))).))))))....((((((((..(((....))).)))))))) ( -25.80)
>DroYak_CAF1 6042 119 + 1
GAACCCACAUCCACGG-GCUAAGCAAGAUUGUGGAUGCAUCCGCACGGACUCCGAUCUACGAAUCGAACGCGACUAUUCCUGGUAGCUAUAGCUUGAAGGACAUGAUAGGGAACGCGAAU
.......(((((((((-.((.....)).)))))))))..(((....)))...((((......))))..((((.((((((((...(((....)))...))))....))))....))))... ( -31.70)
>consensus
AUGCA_AAAUCCACACCCUUGUCCAAGCUCAUGGAGGCAGUCGUACGGGUGCCGAUCGAAGACUCGAACGCCACUCUUUUUGGCCAAUCAAGCUUGGAUCAGUUGAUCGGGGGUGUGAAU
...........((((((((((((((((((....(((....(((..(((...)))..)))...)))....((((.......))))......)))))))).........))))))))))... (-20.24 = -21.52 +   1.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:49:00 2006