Locus 3902

Sequence ID X_DroMel_CAF1
Location 10,447,211 – 10,447,313
Length 102
Max. P 0.829093
window6404

overview

Window 4

Location 10,447,211 – 10,447,313
Length 102
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 74.43
Mean single sequence MFE -22.23
Consensus MFE -5.45
Energy contribution -5.33
Covariance contribution -0.12
Combinations/Pair 1.20
Mean z-score -1.84
Structure conservation index 0.25
SVM decision value 0.71
SVM RNA-class probability 0.829093
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10447211 102 + 22224390
AUAAAAACUAAC-------GUCAUUU-UAUAUAAGAUUGCCAUCU---GUUAGUCGAUAUAAAUAUUUCUAUGAUCGAUCAUUUCGAUAGUGUCGA------UAAGCAUAGCCAG-GCAU
((((((((....-------))..)))-))).......((((.(.(---(((.((((((((...(((....)))(((((.....))))).)))))))------).)))).)....)-))). ( -20.10)
>DroSec_CAF1 5774 102 + 1
AUAAAAACUAAC-------GUCAUUU-UAUAUAAGAUUUCCAUCU---GUUAGUCGAUAUAAAUAUUUCCAUGAUCGAUAAUUUCGAUAGGGUCGA------UUAGCAUAGGCUG-UCAU
((((((((....-------))..)))-)))....(((..((...(---((((((((((..........((...(((((.....))))).)))))))------))))))..))..)-)).. ( -22.90)
>DroSim_CAF1 5755 102 + 1
AUAAAAACUAAC-------GUCAUUU-UAUAUAAGAUUUCCAUCU---GUUAGUCGAUAUAAAUAUUUCCAUGAUCGAUAAUUUCGAUAGGGUCGA------UUAGCAUAGGCUG-UCAU
((((((((....-------))..)))-)))....(((..((...(---((((((((((..........((...(((((.....))))).)))))))------))))))..))..)-)).. ( -22.90)
>DroEre_CAF1 5960 120 + 1
AUCAAAACGAUAUAAUCAAAUCAUUUAUACAAGAUCAUUUCGUUUGUUGUUAGUCGACAUAAAUAUUUCGAUCAUCGAUAAUUUCGAUAAGGGCGAAAUAAGUUAGCAUGGCAAAAUGCU
....((((((.((.(((...............))).)).))))))((((.....)))).....(((((((..((((((.....)))))..)..)))))))....(((((......))))) ( -23.16)
>DroYak_CAF1 6378 98 + 1
AGCAAAACGAUG-------AUCAUUU-UACAUGAGACUUUAAUUUG-------UCGAUGUAAAUAUUUCCAUAAUCGAUCACUUCGAUAAGAUCGA------UUAGCAGGGCCAG-UCAU
.........(((-------((...((-(((((..(((........)-------)).)))))))....(((.(((((((((..........))))))------)))...)))...)-)))) ( -22.10)
>consensus
AUAAAAACUAAC_______GUCAUUU_UAUAUAAGAUUUCCAUCU___GUUAGUCGAUAUAAAUAUUUCCAUGAUCGAUAAUUUCGAUAGGGUCGA______UUAGCAUAGCCAG_UCAU
.....................................................(((((...............(((((.....)))))...)))))........................ ( -5.45 =  -5.33 +  -0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:11:19 2006