Locus 7288

Sequence ID 2L_DroMel_CAF1
Location 20,417,149 – 20,417,243
Length 94
Max. P 0.980252
window11660 window11661

overview

Window 0

Location 20,417,149 – 20,417,243
Length 94
Sequences 4
Columns 94
Reading direction forward
Mean pairwise identity 91.30
Mean single sequence MFE -36.45
Consensus MFE -30.10
Energy contribution -30.23
Covariance contribution 0.12
Combinations/Pair 1.08
Mean z-score -3.48
Structure conservation index 0.83
SVM decision value 1.86
SVM RNA-class probability 0.980252
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20417149 94 + 22407834
CUUUCUUUCCUUUUGUUGGGAAAUCCAAUGGGAGAGCGGGCUCUGUUUUCCAGUCCAAUUGGAUUAUGCCCGGCCGGGCUUUGUCCAAUUGCCA
.....((((((......)))))).......(((((((((...)))))))))....(((((((((...((((....))))...)))))))))... ( -35.40)
>DroSec_CAF1 11804 93 + 1
CUUUCUUUCCUUCUGUUGGGAAAUCCAACGGGAGAGCG-GCUCUGUUUGCCAGUCCAAUUGGAUUAUGCCCGGCCGGGCUUUGUCCAAUUGCCA
.........((((((((((.....))))))))))...(-((.......)))....(((((((((...((((....))))...)))))))))... ( -38.70)
>DroSim_CAF1 12972 93 + 1
CUUUCUUUCCUUCUGUUGGGAAAUCCAACGGGAGAGCG-GCUCUGUUUGCCAGUCCAAUUGGAUUAUGCCCGGCCGGGCUUUGUCCAAUUGCCA
.........((((((((((.....))))))))))...(-((.......)))....(((((((((...((((....))))...)))))))))... ( -38.70)
>DroYak_CAF1 11296 86 + 1
CC--------UACUGUCGGGAAAUCCAACUGGAGAGCGGGCUCUGUUUGCCAGUCCAAUUGGAUUAUGCCCGGCCGGGCUUUGUCCAAUUGCCA
..--------.......((........(((((..(((((...)))))..))))).(((((((((...((((....))))...))))))))))). ( -33.00)
>consensus
CUUUCUUUCCUUCUGUUGGGAAAUCCAACGGGAGAGCG_GCUCUGUUUGCCAGUCCAAUUGGAUUAUGCCCGGCCGGGCUUUGUCCAAUUGCCA
............(((((((.....))))))).((((....))))...........(((((((((...((((....))))...)))))))))... (-30.10 = -30.23 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 20,417,149 – 20,417,243
Length 94
Sequences 4
Columns 94
Reading direction reverse
Mean pairwise identity 91.30
Mean single sequence MFE -30.23
Consensus MFE -26.29
Energy contribution -26.35
Covariance contribution 0.06
Combinations/Pair 1.04
Mean z-score -2.26
Structure conservation index 0.87
SVM decision value 1.55
SVM RNA-class probability 0.963365
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20417149 94 - 22407834
UGGCAAUUGGACAAAGCCCGGCCGGGCAUAAUCCAAUUGGACUGGAAAACAGAGCCCGCUCUCCCAUUGGAUUUCCCAACAAAAGGAAAGAAAG
.((((((((((....((((....))))....)))))))...(((.....))).)))..((.(((..((((.....)))).....))).)).... ( -27.20)
>DroSec_CAF1 11804 93 - 1
UGGCAAUUGGACAAAGCCCGGCCGGGCAUAAUCCAAUUGGACUGGCAAACAGAGC-CGCUCUCCCGUUGGAUUUCCCAACAGAAGGAAAGAAAG
.((((((((((....((((....))))....)))))))...(((.....))).))-).((.(((.(((((.....)))))....))).)).... ( -31.40)
>DroSim_CAF1 12972 93 - 1
UGGCAAUUGGACAAAGCCCGGCCGGGCAUAAUCCAAUUGGACUGGCAAACAGAGC-CGCUCUCCCGUUGGAUUUCCCAACAGAAGGAAAGAAAG
.((((((((((....((((....))))....)))))))...(((.....))).))-).((.(((.(((((.....)))))....))).)).... ( -31.40)
>DroYak_CAF1 11296 86 - 1
UGGCAAUUGGACAAAGCCCGGCCGGGCAUAAUCCAAUUGGACUGGCAAACAGAGCCCGCUCUCCAGUUGGAUUUCCCGACAGUA--------GG
..((..((((.....((((....))))..(((((((((((((.(((.......))).)...))))))))))))..))))..)).--------.. ( -30.90)
>consensus
UGGCAAUUGGACAAAGCCCGGCCGGGCAUAAUCCAAUUGGACUGGCAAACAGAGC_CGCUCUCCCGUUGGAUUUCCCAACAGAAGGAAAGAAAG
.((((((((((....((((....))))....))))))))...........((((....)))))).(((((.....))))).............. (-26.29 = -26.35 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:32:22 2006