Locus 1236

Sequence ID 2L_DroMel_CAF1
Location 3,275,274 – 3,275,391
Length 117
Max. P 0.671702
window2026

overview

Window 6

Location 3,275,274 – 3,275,391
Length 117
Sequences 5
Columns 118
Reading direction forward
Mean pairwise identity 86.29
Mean single sequence MFE -22.73
Consensus MFE -16.19
Energy contribution -17.83
Covariance contribution 1.64
Combinations/Pair 1.05
Mean z-score -1.85
Structure conservation index 0.71
SVM decision value 0.29
SVM RNA-class probability 0.671702
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3275274 117 + 22407834
UCUGGGCGUAUCAAAUGUAUGCCCAUGACAUUGUCCCAUUUCACCGCCCCGCCCCCAUUCACAUCCUUUCAAUAGUCUACCUUU-UUUGACAUUUUUCCUGGCGGUGCACACGCAACA
(((((((((((.....))))))))).))..((((.......(((((((..(....)..................(((.......-...))).........))))))).....)))).. ( -26.10)
>DroSec_CAF1 102199 117 + 1
UCUGGGCGUAUCAAAUGUAUGCCCAUGACAUAGUCCCAUUUCACCGCCCCGCCUCCAUUCACAUCCUAUCAAUAGCCUCCCUUU-UUUGACAUUUUUCUUGGCGGUGCACACGCAACA
(((((((((((.....))))))))).)).................((.(((((...............((((.((.....))..-.))))..........))))).)).......... ( -23.91)
>DroSim_CAF1 105577 117 + 1
UCUGGGCGUAUCAAAUGUAUGCCCGUGACAUAGUCCCAUUUCACCGCCCCGCCCCCAUUCACAUCCUUUCAAUAGCCUCCCUUU-UUUGACAUUUUUCUUGGCGGUGCACACGGAACA
(((((((((((.....))))))))).)).....(((.....(((((((..(....)............((((.((.....))..-.))))..........))))))).....)))... ( -25.80)
>DroEre_CAF1 100184 98 + 1
UCUGGGCGUAUCAAAUGUAUGCCCAUGACACAAUCCCC------------------UUUCACAUCCUUUCAAUAGCCGCCCUU--UUUGACAUUUUUCUUAGCGGUACACACGCAACA
(((((((((((.....))))))))).))..........------------------..................(((((....--................)))))............ ( -18.55)
>DroYak_CAF1 98825 118 + 1
UCUGGGCGUAUCAAAUUUAUGCCCAUGACACAGUCCCAUUUCCCUGCCCCGCCUCAUUUCACAUCCUUUCAAUAGCCGCCCUUUUUUUGACAUUUUUCUUAGCGGUGCACACGCAACA
((((((((((.......)))))))).))................(((.((((.............((......)).............((......))...)))).)))......... ( -19.30)
>consensus
UCUGGGCGUAUCAAAUGUAUGCCCAUGACAUAGUCCCAUUUCACCGCCCCGCCCCCAUUCACAUCCUUUCAAUAGCCUCCCUUU_UUUGACAUUUUUCUUGGCGGUGCACACGCAACA
(((((((((((.....))))))))).)).................((.(((((...............((((..............))))..........))))).)).......... (-16.19 = -17.83 +   1.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:57:25 2006