Locus 4190

Sequence ID 2R_DroMel_CAF1
Location 13,796,675 – 13,796,791
Length 116
Max. P 0.773042
window6737

overview

Window 7

Location 13,796,675 – 13,796,791
Length 116
Sequences 6
Columns 118
Reading direction forward
Mean pairwise identity 74.47
Mean single sequence MFE -36.50
Consensus MFE -17.19
Energy contribution -17.50
Covariance contribution 0.31
Combinations/Pair 1.35
Mean z-score -1.93
Structure conservation index 0.47
SVM decision value 0.53
SVM RNA-class probability 0.773042
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 13796675 116 + 20766785
GCUGCUGGCCCGGAUUUGAGUUGGGCUCCUGCUUGAUCUCCUGCUUGGUCAUCGGCUCCUGCUUGAUUAGCUUGCUGGCUAUCAUCUGCGGAGGAUAUGAAAUCAUA-UUGCAUUAG-
((((.(((((.((....((((..(((....)))..).)))...)).))))).))))..((((.((((.((((....))))))))...))))..((((((....))))-)).......- ( -39.70)
>DroVir_CAF1 119780 106 + 1
GCUGCUGACCCAUAUUGCUGUUGGGUUCCUGCUUGAUCUCCUGUUUGAUCAGCGGCUCCUGUUUGAUCAGCUUGUUGGUCAGCAGCUGUAAAAG--GAA-------G-C-UCUUUAG-
((((((((((.(((..((((.((((...(((((.((((........)))))))))..))))......)))).))).))))))))))....((((--(..-------.-.-)))))..- ( -41.10)
>DroPse_CAF1 94785 108 + 1
GUUGCUGGCCAGGAUUGGAGUUCGGCUCCUGCUUGAUCUCCUGCUUUGUCAUCGGCUCCUGCUUGAUCAGCUUGUUGGCCAGCAGCUGAA---------AGAACAAG-AUCGAUUAUU
((((((((((((.(..((((.(((((....)).))).)))).(((..((((..(((....))))))).))).).))))))))))))....---------........-.......... ( -39.70)
>DroGri_CAF1 115517 108 + 1
GUGGCUGUCCCAUAUUCGAGUUGGGCUCCUGCUUAAUCUCCUGCUUGAUCAGCGGCUCCUGUUUGAUCAGCUUGUUUGCCAGCAGCUGCACGAU--AUAAC-----A-A-AACUUAG-
(..(((((.........(((((((((....)))))).)))..(((.(((((((((...))).)))))))))..........)))))..).....--.....-----.-.-.......- ( -29.90)
>DroSim_CAF1 101350 113 + 1
GCUGCUGACCCGGAUUUGAGUUGGGCUCCUGCUUGAUCUCCUGCUUUGUCAUCGGCUCCUGCUUGAUCAGCUUGUUGGCUAUCAUCUGCGGAUGAUUAGU----AGAUUGGCAUUAG-
..(((..(.........((((..(((....)))..).)))(((((..((((((.((.......((((.((((....))))))))...)).)))))).)))----)).)..)))....- ( -36.10)
>DroYak_CAF1 102087 116 + 1
GCUGCUGACCCGGAUUUGAGUUUGGCUCCUGCUUGAUCUCCUGUUUGGUCAUCGGCUCCUGCUUGAUCAGCUUGCUUGCUAUCAUCUGCGGAUUACAUAAAAACAAA-UUGCAUUAG-
((((.(((((.((((..(((((.(((....))).)).)))..))))))))).))))..((((.((((.(((......)))))))...))))................-.........- ( -32.50)
>consensus
GCUGCUGACCCGGAUUUGAGUUGGGCUCCUGCUUGAUCUCCUGCUUGGUCAUCGGCUCCUGCUUGAUCAGCUUGUUGGCCAGCAGCUGCAGAAG__AUAA____A_A_UUGCAUUAG_
...((((((........(((((((((....)))))).)))..(((.(((((..(((....)))))))))))..))))))....................................... (-17.19 = -17.50 +   0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:13:55 2006