Locus 6014

Sequence ID 3R_DroMel_CAF1
Location 15,838,085 – 15,838,200
Length 115
Max. P 0.927979
window9815

overview

Window 5

Location 15,838,085 – 15,838,200
Length 115
Sequences 6
Columns 115
Reading direction reverse
Mean pairwise identity 79.07
Mean single sequence MFE -44.12
Consensus MFE -26.75
Energy contribution -27.03
Covariance contribution 0.29
Combinations/Pair 1.44
Mean z-score -2.31
Structure conservation index 0.61
SVM decision value 1.19
SVM RNA-class probability 0.927979
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15838085 115 - 27905053
AGAAGCCCAAGUCGGGAGUACGUGAAGAGUUCGAUUUCGAGCAGAAUGAGGCGGAGGCCACCAACUCGGCGCAUCUGCAACAGCUCUUCGGCAGUUUGUUGCAACUGCCUGGUAA
.....(((.....)))..(((..((((((((((....)))(((((.((..((.(((........))).)).)))))))....)))))))(((((((......)))))))..))). ( -42.90)
>DroSec_CAF1 723 115 - 1
AGAAACCCAAGUCGGGAGUCCGUGAAGAGUUCGAUUUCGAGCAGAAUGAAGCGGAGGCCACCAACUCGGCGCAUCUGCAACAGCUCUUCGGCAGUUUGUUGCAACUGCCUGGCAA
.....(((.....))).(((...((((((((((....)))(((((.((..((.(((........))).)).)))))))....)))))))(((((((......))))))).))).. ( -43.30)
>DroSim_CAF1 485 115 - 1
AGAAACCCAAGUCGGGAGUCCGUGAAGAGUUCGAUUUCGAGCAGAAUGAAGCGGAGGCCACCAACUCGGCGCAUCUGCAACAGCUCUUCGGCAGUUUGUUGCAACUGCCUGGCAA
.....(((.....))).(((...((((((((((....)))(((((.((..((.(((........))).)).)))))))....)))))))(((((((......))))))).))).. ( -43.30)
>DroEre_CAF1 485 115 - 1
AGAAACCCAAGUCGGGAGUCCGUGAGGAGUUCGAUUUCGAGCAGAGUGAGGCGGAAGCCACCAACUCGGCGCAGUUGCAACAGCUUUUCGGCAGUUUGUUGCAGCUGCCUGGUAA
....(((...((((((..(((....)))(((((....))))).......(((....))).....))))))(((((((((((((((....)))....))))))))))))..))).. ( -51.50)
>DroWil_CAF1 497 115 - 1
AAAAGCGUCGUGGAGAAUUCCGUGAGGAAUUCGAUUUCGAACGCAAUGAAGCUGAGACCACAAAUUCUGUGCAUUUACAACAGCUCUUUGGUAGUUUGCUUCAGCUGCCAGGACC
......(((.(((.(((((((....)))))))..........((..((((((....((((......((((.........)))).....)))).....))))))))..))).))). ( -37.20)
>DroMoj_CAF1 86862 115 - 1
CCAAGCGCGGGCCCGCCCCGCACGCAGAAUUCGAUUUUGAGCGCAACGAGGCGGAGGCCAUCAACUCGGUUCAUGUGCAGCAGCUCUUCGGCAGCCUGCUGCAGUUGCAAGGACC
((..(((((((.....)))))...((((((...)))))).))((((((((.(.(((........))).))))...(((((((((((....).)).)))))))))))))..))... ( -46.50)
>consensus
AGAAACCCAAGUCGGGAGUCCGUGAAGAGUUCGAUUUCGAGCAGAAUGAAGCGGAGGCCACCAACUCGGCGCAUCUGCAACAGCUCUUCGGCAGUUUGUUGCAACUGCCUGGAAA
.....(((.....))).......((((((((((....)))(((((.((..((.(((........))).)).)))))))....)))))))(((((((......)))))))...... (-26.75 = -27.03 +   0.29)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:10:29 2006