Locus 7179

Sequence ID X_DroMel_CAF1
Location 17,992,855 – 17,992,959
Length 104
Max. P 0.525346
window11727

overview

Window 7

Location 17,992,855 – 17,992,959
Length 104
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 85.09
Mean single sequence MFE -43.35
Consensus MFE -27.56
Energy contribution -27.75
Covariance contribution 0.19
Combinations/Pair 1.10
Mean z-score -1.68
Structure conservation index 0.64
SVM decision value -0.02
SVM RNA-class probability 0.525346
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17992855 104 + 22224390
AGC--------AAGGGAGGGG-------GUGUAGAGGUAG-AUAGCGAGGACCUGCUGCUAUCUGCAUCCCUGUCUAAAUAGUGCCAUCCCGCUCGUUGGCACUGCAUUAGCAGCCAGCU
(((--------..((((((((-------((((((((((((-.(((.(....))))))))).)))))))))))((((....)).))..))))))).((((((..(((....))))))))). ( -40.30)
>DroSec_CAF1 4930 112 + 1
AGCGGAGGGCCAGGGGAGGGG-------GAGGAGAGGUAG-AUAGCGAGGACCUGCUGCUAUCUGCAUCCCUGUCUAAAUAGUGCCAUCCCGCUCGUUGGCACUGCAUUAGCAGCCAGCU
(((((..((((...(((.(((-------((......((((-(((((.((......))))))))))).))))).))).....).)))...))))).((((((..(((....))))))))). ( -49.50)
>DroSim_CAF1 3361 107 + 1
-----UGGGCCAGGGGAGGGG-------GAGGAGAGGUAG-AUAGCGAGGACCUGCUGCUAUCUGCAUCCAUGUCUAAGUAGUGCCAUCCCGCUCGUUGGCACUGCAUUAGCAGCCAGCU
-----((((((((.(.((.((-------(((((...((((-(((((.((......))))))))))).))).((.(........).)))))).))).))))).((((....)))))))... ( -43.70)
>DroEre_CAF1 5902 112 + 1
AGC--------AGGAGAAGGGGAGAGUGGGGGAGGGGUAAGUCACCGAGGACCUGCUGCUAUCUGCAUCCCUGUCUAAAUAGUGCCAUCCCGCUCGUUGGCACUGCAUUAGCAGCCAGCU
(((--------.(((((.(((((..(..((..((.((((.(((......))).)))).)).))..).))))).)))...((((((((..........)))))))).........)).))) ( -39.90)
>consensus
AGC________AGGGGAGGGG_______GAGGAGAGGUAG_AUAGCGAGGACCUGCUGCUAUCUGCAUCCCUGUCUAAAUAGUGCCAUCCCGCUCGUUGGCACUGCAUUAGCAGCCAGCU
.............(((.((((.............((((((..(((((......)))))))))))((((.............))))..)))).)))((((((..(((....))))))))). (-27.56 = -27.75 +   0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:32:05 2006