Locus 3119

Sequence ID 3R_DroMel_CAF1
Location 8,211,178 – 8,211,288
Length 110
Max. P 0.657447
window5059

overview

Window 9

Location 8,211,178 – 8,211,288
Length 110
Sequences 6
Columns 111
Reading direction forward
Mean pairwise identity 78.69
Mean single sequence MFE -28.83
Consensus MFE -17.88
Energy contribution -18.17
Covariance contribution 0.28
Combinations/Pair 1.38
Mean z-score -1.54
Structure conservation index 0.62
SVM decision value 0.26
SVM RNA-class probability 0.657447
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 8211178 110 + 27905053
UACGAGGAACUCAAUGCCAACAAGGCCAAUAUGUUGGCCGAUAUGUUCAAGGCCAAGAUGAAUCAAUCGGCGGGCUAACAGUUCUUUAAAUUAGUGUUACAGUAGCGAAA-
...((((((((....(((((((.((((((....))))))....))))....(((..(((......)))))).)))....)))))))).......(((((...)))))...- ( -29.00)
>DroGri_CAF1 4484 104 + 1
UACGAGGAAUUGAAUGGCAGCAAGGCUGUAAUGUUGGCGGACAUGUUCAAGGCCAAGAUGAAUCAAACAGGUGGCUCCUAAUUAUACAUAUCUAU------AUAUCCGUA-
((((((((.((((((.(((((...))))).(((((....))))))))))).((((...((.......))..))))))))...((((......)))------)....))))- ( -22.00)
>DroSec_CAF1 18053 108 + 1
UACGAGGAACUCAAUGCCAAUAAGGCCAAUAUGCUGGCCGAUAUGUUCAAGGCCAAGAUGAAUCAAUCGGCGCACUGA---UUCUUAAAAUCAGUGUUACAGUAGCGAAAA
...(((...)))...(((.....))).....(((((((((((..(((((.........)))))..))))))(((((((---((.....)))))))))..)))))....... ( -31.50)
>DroSim_CAF1 3682 98 + 1
UACGAGGAACUCAAUGCCAACAAGGCCAAUAUGCUGGCCGAUAUGUUCAAGGCCAAGAUGAAUCAAUCGGCGGGCUAAUAGUUCUUUAAAUCAGUGUU-------------
...((((((((....(((.....)))......(((.((((((..(((((.........)))))..)))))).)))....))))))))...........------------- ( -28.60)
>DroEre_CAF1 3402 110 + 1
UACGAGGAGCUGAAUGCCAACAAGGCCAAUAUGCUGGCCGAUAUGUUCAAGGCCAAGAUGAACCAGUCUGCGGGCUAGCUGUUCUUUAAAUCAGUGUUAUAGUAGCGAAC-
...(((.(((((...(((..((.(((((......)))))(((..(((((.........)))))..)))))..)))))))).)))..........(((((...)))))...- ( -28.40)
>DroYak_CAF1 3698 110 + 1
UACGAGGAGCUGAAUACCAACAAGGCCAACAUGCUGGCCGAUAUGUUCAAGGCCAAGAUGAACCAAUCUGCGGGCUAGCAGUUCCUUAAAUCCGUGUUAUAGUAGCAAAC-
...(((((((((......((((.(((((......)))))....))))...((((.((((......))))...))))..))))))))).......(((((...)))))...- ( -33.50)
>consensus
UACGAGGAACUCAAUGCCAACAAGGCCAAUAUGCUGGCCGAUAUGUUCAAGGCCAAGAUGAAUCAAUCGGCGGGCUAACAGUUCUUUAAAUCAGUGUUA_AGUAGCGAAA_
...((((((((.......((((.(((((......)))))....))))...((((..(((......)))....))))...))))))))........................ (-17.88 = -18.17 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:53:33 2006