Locus 2020

Sequence ID 3L_DroMel_CAF1
Location 5,560,393 – 5,560,500
Length 107
Max. P 0.574361
window3158

overview

Window 8

Location 5,560,393 – 5,560,500
Length 107
Sequences 5
Columns 107
Reading direction forward
Mean pairwise identity 91.12
Mean single sequence MFE -30.42
Consensus MFE -21.48
Energy contribution -21.04
Covariance contribution -0.44
Combinations/Pair 1.23
Mean z-score -2.12
Structure conservation index 0.71
SVM decision value 0.08
SVM RNA-class probability 0.574361
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5560393 107 + 23771897
UAAGCGGGAGGAAAUCCUCCUCUCGCCCUUCAAGCAAGGAGAGACGAUUUCAAAGACACGACAGUGAGGUUGAGAAUUGGGAUAGGGAUCUAGAACUCGAAAGAAAU
...(((((((((.....)))))))))((((.....)))).(((.(((((((((...(((....)))...))))).))))((((....))))....)))......... ( -30.70)
>DroSec_CAF1 24363 107 + 1
UAAGCGGGAGAAAAUCCUCCUCUCGACCUUCAAGCAACGAGAGAAGAUUUCAAAGACACGACAGUGAUGUUGAGGAUUGGGAUAGGGAUGUAGAACUCGAAAGAAAU
....((((.....(((((..((((((.((((((.((..((((.....)))).....(((....))).)))))))).))))))..)))))......))))........ ( -28.00)
>DroSim_CAF1 24719 107 + 1
UAUGCGGGAGGAAAUCCUCCUCUCGCCCUUCAAGCAAGGAGAGACGAUUUCAAAGACACGACAGUGAUGUUGAGGAUUGGGAUAGGGAUCUAGAACUCGAAAGAAAU
...(((((((((.....)))))))))((((.....))))(((..(.((..(((...(.(((((....))))).)..)))..))..)..))).....((....))... ( -33.80)
>DroEre_CAF1 24791 107 + 1
UAAGCGGGAGGAAAUCUUCCUCACGCCCUUCAAGCAAGGAGAGGCGACUUCAAAGACACGAUAGUGAUGUUGAGGAUUGGGAUAGAGAUCUAGAAAACGAUAGAAAU
.....((((((....))))))..((((((((......)))).)))).((((((...(((....)))...))))))((((...(((....))).....))))...... ( -29.60)
>DroYak_CAF1 26008 107 + 1
UAAGCGGGAGGAAGUCUUCCUCUCGUCCCUCAAGCAAGGAGAGGCGACUUCAAAGACACGACAGUGAUGUUGAGGACUGGGAUAGAGAUCUAGAACACGAUAGAAAU
.....(((((((.....)))))))(((((....((........))..((((((...(((....)))...))))))...))))).....((((........))))... ( -30.00)
>consensus
UAAGCGGGAGGAAAUCCUCCUCUCGCCCUUCAAGCAAGGAGAGACGAUUUCAAAGACACGACAGUGAUGUUGAGGAUUGGGAUAGGGAUCUAGAACUCGAAAGAAAU
....(((((((....)))))((((.((((((.......)))......((((((...(((....)))...))))))...)))...)))).........))........ (-21.48 = -21.04 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:22:35 2006