Locus 4090

Sequence ID 3R_DroMel_CAF1
Location 11,162,090 – 11,162,210
Length 120
Max. P 0.719649
window6551

overview

Window 1

Location 11,162,090 – 11,162,210
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 81.28
Mean single sequence MFE -43.93
Consensus MFE -27.35
Energy contribution -28.05
Covariance contribution 0.70
Combinations/Pair 1.38
Mean z-score -2.01
Structure conservation index 0.62
SVM decision value 0.40
SVM RNA-class probability 0.719649
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11162090 120 - 27905053
GCGGUGAACCUACAAAGCCAGUGUACUGGCCAUACUGUGUGGAAUAGGCAGCAUUCAGCUGCUUGGAACCCCACAGAUAGUAAUGGGACAUUUGUGGCGGCUUCUCACGCUGAAUAGCCU
((((....))(((((((((((....)))))....(((((.((..((((((((.....))))))))...)).)))))..............))))))))((((..((.....))..)))). ( -45.20)
>DroVir_CAF1 3573 120 - 1
GCGGUGCACCCACAAAGCCCGUAUACUGGCCAAACUGUGUGGAGUAUGCAGCAUUCAGCUGCUUUGAGCCCCAGAGAUAAUAAUGCGACAUCUGCGACGGUUUCUCACGCUGUAUGGCCU
((((.((.........)))))).....(((((.((.((((((..((.(((((.....)))))..))..))...((((.(((..((((.....))))...))))))))))).)).))))). ( -39.00)
>DroGri_CAF1 3211 120 - 1
GUGGUGAUCCCACAAAGCCCGUAUACUGCCCAUACUGGGUGGUAUAAGCGGCAUUCAGCUGCUUUGAGCCCCACAGAUAGUAGUGGGACAUCUGGGGCGGCUUCUCCCGCUGAAUGGGCU
((((.....))))..(((((((((((..(((.....)))..)))).(((((.....(((((((((((..(((((........)))))...)).)))))))))....)))))..))))))) ( -56.00)
>DroWil_CAF1 3080 120 - 1
GUGGGGCUCCCACAAAUCCUGUGUAUUGGCCAUAUUGCGUAGAAUAGGCGGCAUUUAGCUGCUUGGAACCCCAUAAAUAAUAAUGGGCCAUUUGUGGUGGCUUCUCGCGCUGAAUCGCCU
(.(((((..((((((((.(((((((.((....)).)))))))..((((((((.....))))))))....(((((........)))))..))))))))..))))).)(((......))).. ( -39.70)
>DroMoj_CAF1 3103 120 - 1
GUGGUGAGCCAACAAACCCAGUAUACUGGCCGUACUGUGUGGUAUAUGCAGCAUUCAGCUGCUUUGAGCCCCAUAGAUAAUAAUGCGACAUCUGAGGCGGCUUUUCGCGCUGUAUGGCCU
.(((....)))................((((((((.((((((.....(((((.....)))))...(((((((.(((((...........))))).)).))))).)))))).)))))))). ( -44.60)
>DroAna_CAF1 2994 120 - 1
GCGGCGCUCCCACGAAACCAGUGUAUUGGCCAUACUGGGUGGAGUAGGCGGCGUUCAACUGUUUAGAGCCCCAAAGAUAAUAAUGUGACAUUUGUGGGGGUUUCUCCCGUUGAAUGGCCU
..((((((((.((....(((((((.......))))))))))))))......((((((((.(...(((.(((((.((((...........)))).))))).)))...).))))))))))). ( -39.10)
>consensus
GCGGUGAUCCCACAAAGCCAGUAUACUGGCCAUACUGUGUGGAAUAGGCAGCAUUCAGCUGCUUUGAGCCCCACAGAUAAUAAUGGGACAUCUGUGGCGGCUUCUCACGCUGAAUGGCCU
..((....)).................((((((.(.((((((...(((((((.....))))))).(((((((.(((((...........))))).)).))))).)))))).).)))))). (-27.35 = -28.05 +   0.70)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:17:53 2006