Locus 5090

Sequence ID 3R_DroMel_CAF1
Location 13,423,039 – 13,423,142
Length 103
Max. P 0.788192
window8296

overview

Window 6

Location 13,423,039 – 13,423,142
Length 103
Sequences 5
Columns 111
Reading direction forward
Mean pairwise identity 81.04
Mean single sequence MFE -31.34
Consensus MFE -22.70
Energy contribution -23.46
Covariance contribution 0.76
Combinations/Pair 1.05
Mean z-score -1.80
Structure conservation index 0.72
SVM decision value 0.58
SVM RNA-class probability 0.788192
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13423039 103 + 27905053
UUGGCGUAUCUGACCAAGU-UCCU---C----CUAGUAUCCUUUAAAUAUGGAUACAGAUGACCCAACUGUCGAGCCGCAGGAUGCCUGCGCCUAAUAGCCGUAAAAGCCU
..(((............((-((..---.----...((((((.........))))))....(((......)))))))((((((...)))))).......))).......... ( -26.50)
>DroSec_CAF1 48651 101 + 1
UUGGCGUU-CU-----AGUAUCCUUGCU----CUAGUAUCCUUGAAAUAUGGAUACAGAUGACCCAACUGGCGAGCCGCAGGAUGCCUGCGCCUAAUAGCCGUAAAAGCCU
..(((((.-..-----.(((((((.(((----(..((((((.........)))))).......((....)).))))...)))))))..))))).................. ( -31.60)
>DroSim_CAF1 51163 101 + 1
UUGGCGUU-CU-----AGUAUCCUUGCU----CUAGUAUCCUUGAAAUAUGGAUACAGAUGACCCAACUGGCGAGCCGCAGGAUGCCUGCGCCUAAUAGCCGUAAAAGCCU
..(((((.-..-----.(((((((.(((----(..((((((.........)))))).......((....)).))))...)))))))..))))).................. ( -31.60)
>DroEre_CAF1 48985 103 + 1
UUGGCGUA-CC-----U--GUCCAUGCUCCCCGUCGUAUCCUUCAUACAUGGAUACAGAUGACCCACCUGGUGAGCGGCAGGAUGCCUCCGCCUAAUAGCCGUAAAAGCCU
..(((((.-((-----(--(((...((((..((((((((((.........)))))).))))(((.....))))))))))))))))))...((......))........... ( -34.20)
>DroYak_CAF1 53864 94 + 1
UUGGCGUA-CC-----U--GUCCAUGCUCCUCCUAGUAUCCUUCAUAUAGGGAUACAGAU---------GGUGAGCGGCAGGAUGCCUUCGCCUAAUAGCCGUAAAAGCCU
..(((((.-((-----(--(((...((((..((..((((((((.....))))))))....---------)).)))))))))))))))...((......))........... ( -32.80)
>consensus
UUGGCGUA_CU_____AGUAUCCUUGCU____CUAGUAUCCUUCAAAUAUGGAUACAGAUGACCCAACUGGCGAGCCGCAGGAUGCCUGCGCCUAAUAGCCGUAAAAGCCU
..(((..............................((((((.........)))))).............(((.((.((((((...)))))).))....)))......))). (-22.70 = -23.46 +   0.76)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:45:54 2006