Locus 7219

Sequence ID 3L_DroMel_CAF1
Location 19,358,896 – 19,359,015
Length 119
Max. P 0.787750
window11729

overview

Window 9

Location 19,358,896 – 19,359,015
Length 119
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 88.70
Mean single sequence MFE -31.80
Consensus MFE -22.76
Energy contribution -22.57
Covariance contribution -0.19
Combinations/Pair 1.28
Mean z-score -2.14
Structure conservation index 0.72
SVM decision value 0.58
SVM RNA-class probability 0.787750
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19358896 119 + 23771897
CAACGCGGCGUAUGAGUAGCAUACGAUUGGGCAUCAACUAGGCCAAUUAAUCAAAAGAAAGGCUGUUAUAAAGAAUAGAUCU-CGCAAUCGAAGCUAGAAGAAUGAUUGCCGUGAUCAAC
...(((((((((((.....)))))((((((.(........).))))))(((((.........(((((......))))).(((-.((.......)).)))....)))))))))))...... ( -30.70)
>DroSec_CAF1 8726 119 + 1
CUACGCGGCGUAUGAGUAGCAUACGACUGGGCAUCAACUAAGCCAACUAAUCAUAAGAAAGGCAGUUAUAAAGAAUAGAUCU-CGCAAUCGAAGCGAGAAGAAUUAUUGCCGUGAUCAAC
...(((((((((((.....)))))((((((((.........)))......((....))....)))))............(((-(((.......)))))).........))))))...... ( -32.10)
>DroSim_CAF1 8975 119 + 1
CAACGCGGCGUAUGAGUAGCAUACGAUUGGGCAUCAACUAAGCCAAUUAAUCAAAAGAAAGGCAGUUAUAAAGAAUAGAUCU-CGCAAUCGAAGCGAGAAGAAUUAUUGCCGCGGUCAAC
...(((((((((((.....)))))((((((((.........)))...)))))...........................(((-(((.......)))))).........))))))...... ( -32.20)
>DroYak_CAF1 12835 120 + 1
CAACGCGGCGUAUGAGUGGCAUAUAAUUGGGCAUUAGCUAAGCCAAUUAAUCAAAAGGAAGGCCAUUCUUCAGAUUCGACUUAUGCAAUCGAAGCGAGAAGAAUGAUUGCCGUGAUCAAC
...(((((((...(((((((...(((((((((....))....))))))).((.....))..))))))).....((((..(((..((.......)))))..))))...)))))))...... ( -32.20)
>consensus
CAACGCGGCGUAUGAGUAGCAUACGAUUGGGCAUCAACUAAGCCAAUUAAUCAAAAGAAAGGCAGUUAUAAAGAAUAGAUCU_CGCAAUCGAAGCGAGAAGAAUGAUUGCCGUGAUCAAC
...(((((((((((.....)))))((((((((.........)))......((....))....)))))......(((((.(((.(((.......)))...))).)))))))))))...... (-22.76 = -22.57 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:41:14 2006