Locus 2509

Sequence ID X_DroMel_CAF1
Location 6,668,288 – 6,668,380
Length 92
Max. P 0.847629
window4100 window4101

overview

Window 0

Location 6,668,288 – 6,668,380
Length 92
Sequences 3
Columns 92
Reading direction forward
Mean pairwise identity 82.61
Mean single sequence MFE -32.43
Consensus MFE -24.55
Energy contribution -25.63
Covariance contribution 1.09
Combinations/Pair 1.07
Mean z-score -1.51
Structure conservation index 0.76
SVM decision value -0.05
SVM RNA-class probability 0.508123
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6668288 92 + 22224390
UUGGCACGACCAGAUUAUGGCCUUUUGGGCCAUAAAACAGGUACGAGGCGGAAUAGUCGGCCGGCCGUCCGUCCGAGUGGGUGACAUUCCUG
...((.(((((...((((((((.....))))))))....))).))..))(((((.((((.((.((((......)).)).))))))))))).. ( -35.20)
>DroSim_CAF1 173 92 + 1
UUGCCACGACCAGAUUAUGGCCUGUUGGGCCAUAAAACAGGUACGAGACGGAAUGGUCGGCCAGCCGUCCGUCCGAGUGGGUGACAUUCCUG
...((((.(((...((((((((.....))))))))....))).((.((((((.((((......)))))))))))).))))............ ( -36.50)
>DroYak_CAF1 250 76 + 1
UUGGCACGACCAGAUUAUGGCCUUUUGGGCCAUAAAACAGGUAUCAGGCGG--------G--------CCGGCUGAGUGGGUGACAUUCCUG
((((.....)))).((((((((.....))))))))..((((..((((.((.--------.--------.)).))))...(....)...)))) ( -25.60)
>consensus
UUGGCACGACCAGAUUAUGGCCUUUUGGGCCAUAAAACAGGUACGAGGCGGAAU_GUCGGCC_GCCGUCCGUCCGAGUGGGUGACAUUCCUG
......(((((...((((((((.....))))))))....))).)).((((((.((((......)))))))))).(((((.....)))))... (-24.55 = -25.63 +   1.09)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 6,668,288 – 6,668,380
Length 92
Sequences 3
Columns 92
Reading direction reverse
Mean pairwise identity 82.61
Mean single sequence MFE -30.50
Consensus MFE -21.07
Energy contribution -21.43
Covariance contribution 0.36
Combinations/Pair 1.04
Mean z-score -2.23
Structure conservation index 0.69
SVM decision value 0.78
SVM RNA-class probability 0.847629
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6668288 92 - 22224390
CAGGAAUGUCACCCACUCGGACGGACGGCCGGCCGACUAUUCCGCCUCGUACCUGUUUUAUGGCCCAAAAGGCCAUAAUCUGGUCGUGCCAA
..((((((((..((....)).(((....)))...))).)))))((..((.(((....((((((((.....))))))))...))))).))... ( -32.30)
>DroSim_CAF1 173 92 - 1
CAGGAAUGUCACCCACUCGGACGGACGGCUGGCCGACCAUUCCGUCUCGUACCUGUUUUAUGGCCCAACAGGCCAUAAUCUGGUCGUGGCAA
..((((((((..(((..((......))..)))..)).))))))(((.((.(((....((((((((.....))))))))...))))).))).. ( -37.30)
>DroYak_CAF1 250 76 - 1
CAGGAAUGUCACCCACUCAGCCGG--------C--------CCGCCUGAUACCUGUUUUAUGGCCCAAAAGGCCAUAAUCUGGUCGUGCCAA
..((........))........((--------(--------.((((.(((........(((((((.....)))))))))).)).)).))).. ( -21.90)
>consensus
CAGGAAUGUCACCCACUCGGACGGACGGC_GGCCGAC_AUUCCGCCUCGUACCUGUUUUAUGGCCCAAAAGGCCAUAAUCUGGUCGUGCCAA
......((.(((......((.(((((((....))).....)))).))...(((....((((((((.....))))))))...))).))).)). (-21.07 = -21.43 +   0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:36:31 2006