Locus 5376

Sequence ID 3R_DroMel_CAF1
Location 14,118,798 – 14,118,894
Length 96
Max. P 0.794612
window8760

overview

Window 0

Location 14,118,798 – 14,118,894
Length 96
Sequences 5
Columns 117
Reading direction reverse
Mean pairwise identity 73.88
Mean single sequence MFE -21.02
Consensus MFE -11.31
Energy contribution -11.39
Covariance contribution 0.08
Combinations/Pair 1.15
Mean z-score -1.81
Structure conservation index 0.54
SVM decision value 0.60
SVM RNA-class probability 0.794612
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14118798 96 - 27905053
AACAAGUUCUUUCU------------GGCGGAAACCACUUUUCACAUA-AAGAAGACAA-AAGUGCUUACAAAUAUUUGCGAACUGUUUUGUGUUCGCAGAAACAAUAAA-------
...((((.((((.(------------((.(....)).((((......)-)))....)))-))).)))).......(((((((((........))))))))).........------- ( -19.40)
>DroSec_CAF1 5979 104 - 1
AACAAUUUCCUUUC------------AGCGGAAACCACUUUUCACAUUUGUGAAGACAC-AAGUGCUUACAAAUAUUUGCGAACUGUUUCGUGUUCGCCGAACCAAUAAACCUAUAA
.....(((((....------------...)))))......(((.((((((((....)))-))))).............((((((........)))))).)))............... ( -20.50)
>DroSim_CAF1 5909 97 - 1
AACCAUUUCCUUUC------------AGCGGAAACCACUUUUCACAUUUGUGAAGACAA-AAGUGAUUACAAAUAUUUGCGAACUGUUUCGUGUUCGCAGAAACAAUAAA-------
.....(((((....------------...))))).((((((((((....)))).....)-)))))..........(((((((((........))))))))).........------- ( -23.10)
>DroEre_CAF1 6010 102 - 1
AACAAGUUCCUUUGAGCAACAGCUCUGGCGGAAACGACUAUUCCCACA-------ACGAAAAGAGCUUACAAAUAUUUGCCAACUGUUU-GUGUUCGCAGAACCAAUAAA-------
...((((((.(((((((....))))(((((....)).)))........-------...))).)))))).......(((((.(((.....-..))).))))).........------- ( -21.90)
>DroYak_CAF1 7517 100 - 1
-GCAUGUUCCUUUAAACUACAGCUCUGGCGGGAACGACCUUUCACACA-------ACCA-AAGAGUUUACAAAUAUUUGCGAACUGUUU-GCGUUCGCAGAACCAAUAAA-------
-((.(((((((..........((....)))))))))...........(-------((((-((.((((..(((....)))..)))).)))-).))).))............------- ( -20.20)
>consensus
AACAAGUUCCUUUC____________GGCGGAAACCACUUUUCACAUA___GAAGACAA_AAGUGCUUACAAAUAUUUGCGAACUGUUU_GUGUUCGCAGAACCAAUAAA_______
......((((...................))))..........................................(((((((((........)))))))))................ (-11.31 = -11.39 +   0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:53:15 2006