Locus 6004

Sequence ID 2L_DroMel_CAF1
Location 16,910,434 – 16,910,554
Length 120
Max. P 0.777359
window9537

overview

Window 7

Location 16,910,434 – 16,910,554
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 80.61
Mean single sequence MFE -48.73
Consensus MFE -33.19
Energy contribution -33.75
Covariance contribution 0.56
Combinations/Pair 1.43
Mean z-score -1.76
Structure conservation index 0.68
SVM decision value 0.55
SVM RNA-class probability 0.777359
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16910434 120 + 22407834
GGCCUGAGCUUUAUGGCCCUGGAACUCCGACUAGAUUAUAUGGGAACUUCAGUGUUGAUGACCCGAAUUAGUAGCUUCUCGGCUGCCAUGAAAGAUGAAUGGCGCACUGCUUCCCAAGCG
((((..........))))((((........))))......((((((...((((((.......((((............))))..(((((.........))))))))))).)))))).... ( -33.10)
>DroVir_CAF1 20789 120 + 1
GGCCUGAGCUUCAUGGCGCUGGAGCUGCGCCUCGACUAUAUGGGCACCUCGGUGCUGAUGACGCGCAUCAGCACCUUUGCGGCGGCCAUGAAGGACGAGUGGCGCACGGCCACGCAGGCG
.(((((..((((((((((((((((.(((.((..........))))).)))((((((((((.....))))))))))....)))).))))))))).....(((((.....))))).))))). ( -66.40)
>DroGri_CAF1 20333 120 + 1
GGACUGAGCUUUAUGGCGUUGGAGUUGCGUUUGGACUACAUGGGCACCUCGGUGCUGAUGACACGCAUCAGCACCUUUGCCGCCGCCAUGAAGGAUGAGUGGCGCACCGCCACACAGGCG
...(((..((((((((((.(((((.(((.(.((.....)).).))).)))((((((((((.....)))))))))).....)).)))))))))).....((((((...)))))).)))... ( -55.80)
>DroWil_CAF1 18528 120 + 1
GGCUUGAGUUUUAUGGCUCUGGAGUUGCGUCUGGAUUAUAUGGGUACUUCGGUACUGAUGACAAGAAUCAGCACCUUCUCGGCAGCCAUGAAAGAUGAAUGGCGCACAUCCACUCAGACU
((..((((((((((((((((((((.(((.(((......(((.(((((....))))).)))...)))....))).).)).))).))))))))).((((.........)))).)))))..)) ( -37.00)
>DroMoj_CAF1 18546 120 + 1
GGUCUUAGCUUUAUGGCAUUGGAGCUGCGUCUGGAUUACAUGGGCACCUCGGUCCUGAUGACGCGCAUCAGCACCUUCGCAGCGGCCAUGAAGGACGAAUGGCGCACAGCAUCGCAGGCU
(((((...(((((((((......((((((((((.......))))).....(((.((((((.....)))))).)))...))))).)))))))))(.(((...((.....)).))))))))) ( -43.60)
>DroAna_CAF1 20937 120 + 1
GGCCUGAGUUUCAUGGCCAUGGAACUGCGUUUGGACUACAUGGGCACUUCGGUGCUGAUGACGAGGAUAAGCAGCUUCUCCGCCGCCAUGAAGGACGAGUGGCGCACUGCCGCCCAGGCG
.(((((..(((((((((..((((...(((((((..((.(((.(((((....))))).)))...))..))))).))...))))..))))))))).....(((((.....))))).))))). ( -56.50)
>consensus
GGCCUGAGCUUUAUGGCCCUGGAGCUGCGUCUGGACUACAUGGGCACCUCGGUGCUGAUGACGCGCAUCAGCACCUUCGCGGCCGCCAUGAAGGACGAAUGGCGCACAGCCACCCAGGCG
.(((((..(((((((((....(((.(((.(.((.....)).).))).)))(((((((((.......))))))))).........))))))))).......(((.....)))...))))). (-33.19 = -33.75 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:58:39 2006