Locus 8659

Sequence ID 3L_DroMel_CAF1
Location 22,471,003 – 22,471,107
Length 104
Max. P 0.976862
window14187

overview

Window 7

Location 22,471,003 – 22,471,107
Length 104
Sequences 5
Columns 113
Reading direction reverse
Mean pairwise identity 74.80
Mean single sequence MFE -39.02
Consensus MFE -22.90
Energy contribution -26.10
Covariance contribution 3.20
Combinations/Pair 1.14
Mean z-score -2.17
Structure conservation index 0.59
SVM decision value 1.78
SVM RNA-class probability 0.976862
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22471003 104 - 23771897
AGCAGAGUUCCGAUUUGGAUUCGAAUUGAGAUCGGGAUCGGCUACCAUUCGGGUCUUGGCUUGGGGAUAGCCUCUGGGAUGGG---------GGUCAAAUGCUGGCAACAGCU
....((.(((((((((.(((....))).)))))))))))(((..((((((.((....((((.......)))).)).)))))).---------.)))....((((....)))). ( -42.90)
>DroSec_CAF1 21166 104 - 1
AGCAGAGUUCCGAUUUGGAUUCGAAUAGGGAUCGGGAUCGGCUCCCAUUCGGGUUUGGGCUUGGGGAUAGCCUCUGGAAUGGA---------UACCAAAUGAUGGCAACAGCU
(((.(((..(((((((.(((((......))))).))))))))))((((((.((...(((((.......))))))).)))))).---------..........((....))))) ( -37.50)
>DroSim_CAF1 21000 104 - 1
AGCAGAGUUCCGAUUUGGAUUCGAAUGGGGAUCGGGAUCGGCUCCCACUCGGGUUUGGGCUUGGGGAUAGCCUCUGGAAUGGG---------CACCAAAUGCUGGCAACAGCU
.((...((((((.((..(((((((.((((..(((....)))..)))).)))))))..))...((((....))))))))))..)---------).......((((....)))). ( -42.20)
>DroEre_CAF1 24956 99 - 1
AGCGGAAUUCGCAUUUGGAUUCGAAUGGGGAUCGGCAUCAGCUCCGA--------------UGGGGAGUAUCUCUGGGAUGGAUGGGCUGGAUGCUGGAUGCUGGAAACAGCU
.......(((.((((((....)))))).)))(((((((((((((((.--------------(((((.....)))))...))))...))).))))))))..((((....)))). ( -36.60)
>DroYak_CAF1 26733 106 - 1
AGCAGAAUUCGGAUUUGGAUUCGAAUGGGGAUCGGGAUCGGCCCCGAUUUGGGGUUGCGCAUGGGGAGUGCCUCCGGAAUGGAUGGGAUGGA-------UGCUGGCAACAGCU
.((........(((((.(((((......))))).)))))((((((.....))))))..)).......((.(((((.....))).)).))...-------.((((....)))). ( -35.90)
>consensus
AGCAGAGUUCCGAUUUGGAUUCGAAUGGGGAUCGGGAUCGGCUCCCAUUCGGGUUUGGGCUUGGGGAUAGCCUCUGGAAUGGA_________UACCAAAUGCUGGCAACAGCU
.........(((((((.(((((......))))).)))))))...((((((.((....((((.......)))).)).))))))..................((((....)))). (-22.90 = -26.10 +   3.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:21:33 2006