Locus 3228

Sequence ID 3L_DroMel_CAF1
Location 9,438,254 – 9,438,359
Length 105
Max. P 0.752917
window5025

overview

Window 5

Location 9,438,254 – 9,438,359
Length 105
Sequences 6
Columns 117
Reading direction reverse
Mean pairwise identity 77.29
Mean single sequence MFE -36.97
Consensus MFE -21.60
Energy contribution -20.22
Covariance contribution -1.39
Combinations/Pair 1.40
Mean z-score -1.71
Structure conservation index 0.58
SVM decision value 0.48
SVM RNA-class probability 0.752917
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9438254 105 - 23771897
UUCGGAUGAGGUGUUCGAAUUGGAGGCAUUUAGGUGCGAAUUGGGAAAUGCUAGCAUUUCCAGCGAAGAUUCAUUCGAAUUGGA------CGAUCCGUUUGAUGC------AAUGUG
.(((((((.(((((((((.(((((.((((....))))(((((.(((((((....)))))))......))))).))))).)))))------).))))))))))...------...... ( -32.50)
>DroVir_CAF1 12469 116 - 1
-UCGGACGAGGUGUUCGAAUUGGAGGCAUUCAAAUGGGAGCUGGGAAAGGCGAGCAGCUCCAGCGAUGACUCAUUCGAAUUGGAGGCAUUUGAGCCAUUCGAAGCGCUCGUCAGGUG
-...((((((((.(((((((....(((..(((((((...(((.(......).)))..(((((.(((........)))...))))).))))))))))))))))))).))))))..... ( -41.60)
>DroPse_CAF1 9170 105 - 1
CUCCGACGAGGUAUUCGAGUUGGAGGCAUUCAAAUGGGAGUUGGGGAAGGCGAGUAGCUCCAGCGAGGACUCGUUUGAGUUGGA------GGACCCGUUGGAGGC------CAUGUG
((((((((.(((.(((((((.....)).((((((((((.(((((((...(....)..))))))).....)))))))))))))))------..)))))))))))..------...... ( -38.30)
>DroGri_CAF1 7685 116 - 1
-UCGGAUGAGGUAUUCGAAUUGGAAGCAUUUAGAUGUGAGCUUGGAAAGGCGAGCAAUUCCAGCGAAGACUCAUUCGAAUUGGAACCAUUCGAACCGUUCGAAGUGCUCGUCAAGUG
-(((((((((...((((...(((((((((....))))..(((((......)))))..))))).))))..))))))))).((((...(((((((.....))).))))....))))... ( -35.10)
>DroAna_CAF1 7806 105 - 1
CUCGGACGAUGUGUUCGAAUUGGAGGCAUUGAGGUGGGAGUUGGGGAAGGCCAGCAUCUCCAGGGAGGACUCAUUGGAGUUGGA------GGAUCCGUUCGAGGC------CAUCUG
(((((((((((.((((...((((((((((....)))...(((((......))))).)))))))...)))).))))(((......------...))))))))))..------...... ( -36.60)
>DroPer_CAF1 9171 105 - 1
CUCCGACGAGGUAUUCGAGUUGGAGGCAUUCAAAUGGGAGUUGGGGAAGGCGAGUAACUCCAGCGAGGACUCGUUUGAGUUGGA------GGACCCGUUGGAGGC------CAUGUG
((((((((.(((.(((((((.....)).((((((((((.(((((((...........))))))).....)))))))))))))))------..)))))))))))..------...... ( -37.70)
>consensus
CUCGGACGAGGUAUUCGAAUUGGAGGCAUUCAAAUGGGAGUUGGGAAAGGCGAGCAACUCCAGCGAGGACUCAUUCGAAUUGGA______GGACCCGUUCGAGGC______CAUGUG
.(((((((..((.(((.....))).))((((.((((((.(((((((...(....)..))))))).....)))))).))))...............)))))))............... (-21.60 = -20.22 +  -1.39)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:52:32 2006