Locus 1725

Sequence ID 3L_DroMel_CAF1
Location 5,001,239 – 5,001,345
Length 106
Max. P 0.828819
window2657

overview

Window 7

Location 5,001,239 – 5,001,345
Length 106
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 92.23
Mean single sequence MFE -30.68
Consensus MFE -28.19
Energy contribution -28.08
Covariance contribution -0.11
Combinations/Pair 1.07
Mean z-score -1.31
Structure conservation index 0.92
SVM decision value 0.71
SVM RNA-class probability 0.828819
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5001239 106 - 23771897
AAAAGUCCGCAGCAAACCAUUUAGCAGUUAGUUUUGAGCUUAAGCCAUUUGCAGUUGUUGCUC-------------GGCCUGGUUUAUGCCA-GCCUUUGAUAUGGAUUUUGUCGCCGUU
.((((((((((((((..((..(.((....(((.....)))...)).)..))...)))))))..-------------(((.((((....))))-)))........)))))))......... ( -28.60)
>DroSec_CAF1 221882 106 - 1
AAAAGUCCGCAGCGAACCAUUUAGCAGUUAGUUUUGAGCUUAAGCCAUUUGCAGUUGUUGCUC-------------GGCCUGGUUUAUGCCA-GUCUUUGAUAUGGAUUUUGUCGCCGUU
........(((((((..((..(.((....(((.....)))...)).)..))...))))))).(-------------((((((((....))))-).....((((.......)))))))).. ( -25.70)
>DroSim_CAF1 241658 106 - 1
AAAAGUCCGCAGCAAACCAUUUAGCAGUUAGUUUUGAGCUUAAGCCAUUUGCAGUUGUUGCUC-------------GGCCUGGUUUAUGCCA-GCCUUUGAUAUGGAUUUUGUCGCCGUU
.((((((((((((((..((..(.((....(((.....)))...)).)..))...)))))))..-------------(((.((((....))))-)))........)))))))......... ( -28.60)
>DroEre_CAF1 224962 106 - 1
AAAAGUCCGCAGCAAACCAUUUAGCAGUUAGUUUUGAGCUUUAGCCAUUUGCAGUUGUUGCUC-------------GGCCUGGUUUAUGCCA-GCCUUUGAUAUGGAUUUUGUCGCCGUU
.((((((((((((((..((..(.((....(((.....)))...)).)..))...)))))))..-------------(((.((((....))))-)))........)))))))......... ( -28.60)
>DroYak_CAF1 229944 106 - 1
AAAAGUCCGCAGCAAACCAUUUAGCAGUUAGUUUUGAGCUUUAGCCAUUUGCAGUUGUUGCUC-------------GGCCUGGUUUAUGCCA-GCCUUUGAUAUGGAUUUUGUCGCCGCU
.((((((((((((((..((..(.((....(((.....)))...)).)..))...)))))))..-------------(((.((((....))))-)))........)))))))......... ( -28.60)
>DroAna_CAF1 231956 120 - 1
AAAAGUCCGCAGCAAACCAUUUAGCAGUUAGUUUUGGGCUUUAGCCAUUUGCUGAUGUUGCUUGGCUGCCUGGCUUGGCUUGGUUUAUGCCAAGCCUUUGAUACGGAUUUUGUUGCCGUU
.((((((((((((.........((((((((((....(((....)))....))))))..))))..)))))..((((((((.........))))))))........)))))))......... ( -44.00)
>consensus
AAAAGUCCGCAGCAAACCAUUUAGCAGUUAGUUUUGAGCUUAAGCCAUUUGCAGUUGUUGCUC_____________GGCCUGGUUUAUGCCA_GCCUUUGAUAUGGAUUUUGUCGCCGUU
.((((((((((((((..((..(.((....(((.....)))...)).)..))...)))))))...............(((.((((....)))).)))........)))))))......... (-28.19 = -28.08 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:14:33 2006