Locus 3708

Sequence ID 2R_DroMel_CAF1
Location 12,304,637 – 12,304,757
Length 120
Max. P 0.558296
window6024

overview

Window 4

Location 12,304,637 – 12,304,757
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 82.22
Mean single sequence MFE -41.91
Consensus MFE -29.80
Energy contribution -30.05
Covariance contribution 0.25
Combinations/Pair 1.19
Mean z-score -1.44
Structure conservation index 0.71
SVM decision value 0.05
SVM RNA-class probability 0.558296
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 12304637 120 + 20766785
AGAGUCCUUCAAUGUGGAAGUAGUUACUCCGGCCCUUGGAUGCCUAAAUCUCUCGCCGGCCAAAACCAUUGGCUCCAUGCGAAUGGCAAGCGGCACAAAAUUUGUGCCAGGCCAUCGCAA
.(((((((((......))))..(((...(((((....((((......))))...)))))....)))....)))))..(((((.((((....((((((.....))))))..))))))))). ( -42.20)
>DroVir_CAF1 9579 120 + 1
GGAAUCAUUUAAUGUGGAAUCGAUAACACCAGCGUUGGGCUGCUUGAAUCUAUCGCCCGCCAAGACCAUAGGCUCCAUGCGCAUGGCCAGCGGCACCAAGUUUGUGCCCGGCCAUCGCAA
(((..(........(((...(((((.((.((((.....))))..))....)))))....)))........)..))).((((.((((((.(.(((((.......)))))))))))))))). ( -39.59)
>DroGri_CAF1 1848 120 + 1
GGAAUCGUUUAAUGUGGAGUCUGUGGCGCCAGCGUUGGGUUGUUUAAGUCUAUCGCCGGCCAAGACAAUUGGCUCCAUGCGCAUGGCCAGUGGCACCAAGUUUGUGCCCGGCCAUCGCAA
.............((((((((..((..(((.(((.(((..(.....)..))).))).))).....))...))))))))(((.((((((.(.(((((.......))))))))))))))).. ( -49.40)
>DroWil_CAF1 1486 120 + 1
GGAAUCGUUCAAUGUGGAAACUGUGACACCAGCCUUGGGCUGUUUGAAUCUCUCGCCAGCUAAAACAAUUGGAUCUAUGCGCAUGGCCAGUGGCACCAAAUUCGUGCCAGGUCAUCGCAA
......(((((((((.....((((((((.(((((...)))))..))......))).))).....)).)))))))...((((.((((((..((((((.......)))))))))))))))). ( -35.10)
>DroMoj_CAF1 1501 120 + 1
GGAAUCAUUCAAUGUGGAAUCGGUGACACCAGCUCUCGGCUGCUUAAAUCUGUCGCCUGCCAAGACCAUCGGCUCCAUGCGCAUGGCCAGUGGGACAAAGUUUGUGCCGGGCCAUCGAAA
.............(((((...(((((((.((((.....))))........))))))).(((.........)))))))).((.((((((...((.(((.....))).)).))))))))... ( -38.70)
>DroAna_CAF1 1469 120 + 1
GGAGUCCUUCAACGUGGAAACUGUCACGCCGGCCCUGGGCUGUUUGAAUCUCUCGCCCGCCAAAACCAUCGGCUCCAUGCGCCUGGCCAGCGGCACCAAGUUCGUGCCUGGCCAUCGCAA
((((((......(((((......)))))..(((...((((..............))))))).........)))))).((((..((((((..(((((.......))))))))))).)))). ( -46.44)
>consensus
GGAAUCAUUCAAUGUGGAAUCUGUGACACCAGCCCUGGGCUGCUUAAAUCUCUCGCCCGCCAAAACCAUUGGCUCCAUGCGCAUGGCCAGCGGCACCAAGUUUGUGCCAGGCCAUCGCAA
.............(((((...........((((.....))))................(((.........))))))))(((.((((((...(((((.......))))).))))))))).. (-29.80 = -30.05 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:02:23 2006