Locus 2074

Sequence ID X_DroMel_CAF1
Location 5,672,300 – 5,672,420
Length 120
Max. P 0.961609
window3371 window3372

overview

Window 1

Location 5,672,300 – 5,672,420
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 96.11
Mean single sequence MFE -31.67
Consensus MFE -29.76
Energy contribution -29.10
Covariance contribution -0.66
Combinations/Pair 1.09
Mean z-score -2.63
Structure conservation index 0.94
SVM decision value 1.53
SVM RNA-class probability 0.961609
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5672300 120 + 22224390
GCAAUGCAAUUUGCAAGCUGUUUUAAUAAUGCAACGAUCUGUAUUAUUCAGUGGCGACGCUUGAUAUUUAUUCAUGCCGCCUUGCAUUUAAGAUUCCUGCUGCCAGCACAUUUUGCAAAU
....(((((..(((((((((....(((((((((......)))))))))))))((((..((.(((.......))).)))))))))))...........(((.....)))....)))))... ( -29.70)
>DroSec_CAF1 11327 120 + 1
ACAAUGCAGUUUGCAAGCUGUUUUAAUAAUACAACGAUCUGUAUUAUUCAGUGGCGACGCUUGAUAUUUAUUCAUGUCGCCUUGCAUUUAAGCUCCUUGCUGCCAGCACAUUUUGCAAAU
........((((((((((((....(((((((((......)))))))))))))(((((((..(((.......)))))))))).(((.....(((.....)))....)))....)))))))) ( -33.40)
>DroSim_CAF1 11831 120 + 1
GCAAUGCAGUUUGCAAGCUGUUUUAAUAAUACAACGAUCUGUAUUAUUCAGUGGCGACGCUUGAUAUUUAUUCAUGCCGCCUUGCAUUUAAGCUCCUUGCUGCCAGCACAUUUUGCAAAU
(((((((....(((((((((....(((((((((......)))))))))))))((((..((.(((.......))).)))))))))))....(((.....)))....)))....)))).... ( -31.90)
>consensus
GCAAUGCAGUUUGCAAGCUGUUUUAAUAAUACAACGAUCUGUAUUAUUCAGUGGCGACGCUUGAUAUUUAUUCAUGCCGCCUUGCAUUUAAGCUCCUUGCUGCCAGCACAUUUUGCAAAU
....(((((..(((((((((....(((((((((......)))))))))))))((((..((.(((.......))).)))))))))))...........(((.....)))....)))))... (-29.76 = -29.10 +  -0.66)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 2

Location 5,672,300 – 5,672,420
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 96.11
Mean single sequence MFE -31.37
Consensus MFE -28.77
Energy contribution -28.67
Covariance contribution -0.11
Combinations/Pair 1.06
Mean z-score -2.32
Structure conservation index 0.92
SVM decision value 0.95
SVM RNA-class probability 0.888794
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5672300 120 - 22224390
AUUUGCAAAAUGUGCUGGCAGCAGGAAUCUUAAAUGCAAGGCGGCAUGAAUAAAUAUCAAGCGUCGCCACUGAAUAAUACAGAUCGUUGCAUUAUUAAAACAGCUUGCAAAUUGCAUUGC
((((((((..(((.(((....)))........(((((((((((((.(((.......)))...)))))).(((.......)))....)))))))......)))..))))))))........ ( -29.70)
>DroSec_CAF1 11327 120 - 1
AUUUGCAAAAUGUGCUGGCAGCAAGGAGCUUAAAUGCAAGGCGACAUGAAUAAAUAUCAAGCGUCGCCACUGAAUAAUACAGAUCGUUGUAUUAUUAAAACAGCUUGCAAACUGCAUUGU
.(((((((.....((((.(((......((......))..((((((.(((.......)))...)))))).)))((((((((((....))))))))))....)))))))))))......... ( -32.50)
>DroSim_CAF1 11831 120 - 1
AUUUGCAAAAUGUGCUGGCAGCAAGGAGCUUAAAUGCAAGGCGGCAUGAAUAAAUAUCAAGCGUCGCCACUGAAUAAUACAGAUCGUUGUAUUAUUAAAACAGCUUGCAAACUGCAUUGC
.(((((((.....((((.(((......((......))..((((((.(((.......)))...)))))).)))((((((((((....))))))))))....)))))))))))......... ( -31.90)
>consensus
AUUUGCAAAAUGUGCUGGCAGCAAGGAGCUUAAAUGCAAGGCGGCAUGAAUAAAUAUCAAGCGUCGCCACUGAAUAAUACAGAUCGUUGUAUUAUUAAAACAGCUUGCAAACUGCAUUGC
.(((((((.....(((((((..(((...)))...)))..((((((.(((.......)))...))))))....((((((((((....))))))))))....)))))))))))......... (-28.77 = -28.67 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:25:36 2006