Locus 1225

Sequence ID 2R_DroMel_CAF1
Location 4,837,402 – 4,837,508
Length 106
Max. P 0.668770
window2130

overview

Window 0

Location 4,837,402 – 4,837,508
Length 106
Sequences 5
Columns 107
Reading direction forward
Mean pairwise identity 86.41
Mean single sequence MFE -26.84
Consensus MFE -21.75
Energy contribution -21.59
Covariance contribution -0.16
Combinations/Pair 1.24
Mean z-score -1.60
Structure conservation index 0.81
SVM decision value 0.29
SVM RNA-class probability 0.668770
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4837402 106 + 20766785
AGUAUUUGCGAAGCUCACUUAAAU-CAGAUAUUUUUCCCAGUGCAAUUGUAGCUGAGGCACCGCCUUCGGUGGCAAAUUCAAUUAAAUAACUGCACAGAAAACUUUC
.(((((((..(((....)))....-)))))))(((((...(((((.((((.((((((((...))).))))).))))(((......)))...))))).)))))..... ( -21.20)
>DroSec_CAF1 7917 106 + 1
AGUAUUUGCAAAGCCCACUAAAGC-CAAAUAUUUUUCUCAGUGCAGUUGUAGCUGGGGCAGCGCCUUCGGCGGCAAAUUCAAUUAAAUAACUGCACAGAAAACUUUC
.(((((((....((........))-)))))))((((((..((((((((((.((((...))))(((......)))............))))))))))))))))..... ( -28.70)
>DroSim_CAF1 10824 103 + 1
AGUAUUUUGGAA---CACUAAAGC-CAAAUAUUUUUCUCAGUGCAAGUGUAGCUGGGGCAGCGCCUUCGGUGGCAAAUUCAAUUAAAUAACUGCACAGAAAACUUUC
.....(((((..---........)-))))...((((((..(((((..(((.((((...))))(((......)))............)))..)))))))))))..... ( -22.20)
>DroEre_CAF1 13011 107 + 1
AAUGUUUGCGAAGCGCACUGGGGCGUAGGUAUUUUUCCCAGUGCAGUUGUAGCUGAACCAGCGCCUUCGGUGGCAAAUUCAAUUAAAUAACUGCACAGAAAACUUUC
...((((.(...(((((((((((.(........).)))))))))((((((.((((...))))(((......)))............))))))))...).)))).... ( -32.60)
>DroYak_CAF1 8987 107 + 1
AAUGUUCGCAAAGCUCACUAAAGCAUAGACGUUUUUCGCAGUGCAGUUGUAGCUGAACCAGCGCCUUCGGUGGCAAAUUCAAUUAAAUAACUGCACAGAAAACUUUC
....(((((...(((......)))...((......)))).((((((((((.((((...))))(((......)))............)))))))))).)))....... ( -29.50)
>consensus
AGUAUUUGCGAAGCUCACUAAAGC_CAGAUAUUUUUCCCAGUGCAGUUGUAGCUGAGGCAGCGCCUUCGGUGGCAAAUUCAAUUAAAUAACUGCACAGAAAACUUUC
.(((((((.................)))))))(((((...((((((((((.((((...))))(((......)))............)))))))))).)))))..... (-21.75 = -21.59 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:59:28 2006