Locus 568

Sequence ID X_DroMel_CAF1
Location 1,628,281 – 1,628,401
Length 120
Max. P 0.695250
window895

overview

Window 5

Location 1,628,281 – 1,628,401
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 86.67
Mean single sequence MFE -36.36
Consensus MFE -23.26
Energy contribution -24.82
Covariance contribution 1.56
Combinations/Pair 1.06
Mean z-score -2.45
Structure conservation index 0.64
SVM decision value 0.34
SVM RNA-class probability 0.695250
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1628281 120 - 22224390
AAUGAAGAUGCAAACCGAAUCAGGGAAAUUGGCAGAGCAAAGUGUCAUCGCUUCAAAGGAAACGCCAGGCAUCGGACUCUAGCUGGAGUUGCGAUGAAGCUGGGAAGGAUUGCUUUGUUU
........(((...((......)).......)))((((((((((..(((.((((...(....).((((.(((((((((((....)))))).)))))...))))))))))))))))))))) ( -37.80)
>DroSec_CAF1 23511 113 - 1
AAUCAAGAUGCAAACCGAAUCAGGGAAAUUGGCAGAGCAAAGUGUCAUCGUCUCAAAGGAAA-------CAUCGGACUCCAGAUGGAGUUGCGAUGAAGCUGGAAAGGAUUGGUUUGUUU
.........(((((((.((((.((((...(((((........)))))...))))........-------(((((((((((....)))))).)))))...((....))))))))))))).. ( -35.90)
>DroSim_CAF1 39946 113 - 1
AAUCAAGAUGCAAACCGAAUCAGGGAAAUUGGCAGAGCAAAGUGUCAUCGCCUCAAAGGAAA-------CAUCGGACUCCAGAUGGAGUUGCGAUGAAGCUGGAAAGGAUUGGUUUGUUU
.........(((((((((.((.......(((......)))(((.(((((((......(....-------)....((((((....))))))))))))).))).....)).))))))))).. ( -34.30)
>DroEre_CAF1 23591 120 - 1
AAUCAAGAUGCAAACCGUAUCGGAAAAGUUGCAAGAGCAAAGUGUCAUCGCCUCAAAGGCAACGCCAGACAUCGGACUCCAGCACGAGUUGCGAUGAAGCUGGAAAGGAUUGGUUUGUUU
.........((((((((.(((.((....((((....))))....))...(((.....)))....((((.((((((((((......))))).)))))...))))....))))))))))).. ( -36.90)
>DroYak_CAF1 27737 120 - 1
CAUCAAGAUGCAAACCGAAUCAGGGAAAUUGCCAGUGCAAAGUGUCAGCGCCUCAAAGGAAACGCCAGACAUUGGACUCCAGCACGAGUUGCAAUGAAGCUGGCAAGGAUUGGGUGGUCC
......(((((...((......))....((((....)))).)))))..((((.(((.(....)(((((.((((((((((......))))).)))))...))))).....))))))).... ( -36.90)
>consensus
AAUCAAGAUGCAAACCGAAUCAGGGAAAUUGGCAGAGCAAAGUGUCAUCGCCUCAAAGGAAACGCCAG_CAUCGGACUCCAGCUGGAGUUGCGAUGAAGCUGGAAAGGAUUGGUUUGUUU
.........((((((((.(((.......(((......)))(((.(((((((......(....)...........((((((....))))))))))))).)))......))))))))))).. (-23.26 = -24.82 +   1.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:47:58 2006