Locus 5483

Sequence ID 3R_DroMel_CAF1
Location 14,458,396 – 14,458,512
Length 116
Max. P 0.614685
window8944

overview

Window 4

Location 14,458,396 – 14,458,512
Length 116
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 90.01
Mean single sequence MFE -27.05
Consensus MFE -20.58
Energy contribution -20.95
Covariance contribution 0.37
Combinations/Pair 1.05
Mean z-score -1.63
Structure conservation index 0.76
SVM decision value 0.17
SVM RNA-class probability 0.614685
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14458396 116 + 27905053
GGCAGAAAUUUGUUGGCCACAGGU-UUGCUAAUUAUUUAAACCGAACAAUUUAACUGCAAAAACGCAGAGGACACUCCCCAAAGAGCAGAAAACAAUUAGGCGAAAUCCAGCCAGCC---
(((......(((((.(((...(((-(((.........))))))...........((((......)))).((.....)).....).))....)))))...(((........))).)))--- ( -23.70)
>DroSec_CAF1 15752 118 + 1
GGCAGCCAUUAGUUGGCCACAGGU-UUGCUAAUUAUUUAAACCGAACAAUUUAACUGCAA-AACGCAGAGGACACUCCCCAAAGAGCAGAAACCAAUUAGGCGAAUUCCAGCCAACAGCA
(((.(((..(((((((((...(((-(((.........))))))...........((((..-...)))).))...(((......)))......))))))))))(.....).)))....... ( -26.80)
>DroSim_CAF1 16371 118 + 1
GGCAGACAUUAGUUGGCCACAGGU-UUGCUAAUUAUUUAAACCGAACAAUUUAACUGCAA-AACGCAGAGGACACUCCCCAAAGAGCAGAAACCAAUUAGGCGAAUUCCAGCCAGCAGCA
.((......(((((((((...(((-(((.........))))))...........((((..-...)))).))...(((......)))......)))))))(((........))).)).... ( -26.00)
>DroYak_CAF1 18233 113 + 1
GGCAGGCAUUAGUUGGCCACGGGUUUUGCUAAUUAUUUAAACCAAACAAAUUAUCUGCAA-CACGCAGAGGACACUCCCCAAAGAGCACAAAACUAUUAGGCGAAAUCCAGCCA------
(((.(((........)))..((((((((((.......................(((((..-...))))).....(((......))).............)))))))))).))).------ ( -31.70)
>consensus
GGCAGACAUUAGUUGGCCACAGGU_UUGCUAAUUAUUUAAACCGAACAAUUUAACUGCAA_AACGCAGAGGACACUCCCCAAAGAGCAGAAAACAAUUAGGCGAAAUCCAGCCAGCA___
...........((((((....((..(((((........................((((......))))......(((......))).............)))))...)).)))))).... (-20.58 = -20.95 +   0.37)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:56:11 2006