Locus 1344

Sequence ID 2L_DroMel_CAF1
Location 3,566,959 – 3,567,062
Length 103
Max. P 0.764899
window2194

overview

Window 4

Location 3,566,959 – 3,567,062
Length 103
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 79.31
Mean single sequence MFE -34.74
Consensus MFE -24.63
Energy contribution -25.17
Covariance contribution 0.54
Combinations/Pair 1.10
Mean z-score -1.44
Structure conservation index 0.71
SVM decision value 0.51
SVM RNA-class probability 0.764899
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3566959 103 + 22407834
AGUGGCGACGUUUUGUGGUUGCAAGGCACACACAGAAACAGCCACGAAAACACAAG-------GCUUGUGGCCCAGUGGACAGCUAAAAUGUUGCACGUUGCCGGUGGUU-------
(.(((((((((((((((((((.................))))))))))..(((..(-------((.....)))..)))(.((((......)))))))))))))).)....------- ( -34.93)
>DroSec_CAF1 35549 103 + 1
AGUGGCGACGUUUUGUGGUUGCAAGGCACACACAGAAACAGCCACGAAAACACCAU-------GCUUGUGGCCCAGUGGACAGCUAAAAUGUUGCACGUUGCCGGUGGUU-------
.(((((....(((((((..(((...)))..)))))))...))))).....((((((-------....))(((...(((..((((......)))))))...)))))))...------- ( -34.50)
>DroSim_CAF1 35837 103 + 1
AGUGGCGACGUUUUGUGGUUGCAAGGCACACACAGAAACAGCCACGAAAACACAAG-------GCUUGUGGCCCAGUGGACAGCUAAAAUGUUGCACAUUGCCGGUGGUU-------
.(((((....(((((((..(((...)))..)))))))...))))).....(((..(-------((.....)))(((((..((((......))))..)))))...)))...------- ( -36.50)
>DroYak_CAF1 37115 110 + 1
AGUGGCGACGUUUUGUGGUUGCAAGGCACACACAGCAACAGCCACGAAAACACAAGACUUGUGGCUUGUGGCCCAGUGGACAGCUAAAAUGUUGCACGUUGCCGGUGGUU-------
(.(((((((((..((((..(((...)))..))))(((((((((((((...((((.....))))..)))))))..(((.....)))....))))))))))))))).)....------- ( -42.20)
>DroAna_CAF1 39396 80 + 1
AGUGGCGACGUUUUGUGGUUGCAAGGCACACACA-----AGCC-------------------------UGGCCCAGUGGACAGCUAAAAUGUUGCACGUUGCUGGUGGCG-------
.(..((.((.....)).))..).((((.......-----.)))-------------------------)(.(((((..(.((((......))))....)..)))).).).------- ( -25.80)
>DroPer_CAF1 38197 106 + 1
AGUGGCGACGUUUUGUGGUUGCAAGGCAUACG--GACCCAGGCU----GUGGCAAG-----GGGGGGGGGGCAUGGUGGACAACUAAAAUGUUGCACGUUGCUGGUGGCGGCGCAGC
....((((((((((((..(..(...((.....--..(((..((.----...))..)-----)).......))...)..)...)).)))))))))).((((((.....)))))).... ( -34.54)
>consensus
AGUGGCGACGUUUUGUGGUUGCAAGGCACACACAGAAACAGCCACGAAAACACAAG_______GCUUGUGGCCCAGUGGACAGCUAAAAUGUUGCACGUUGCCGGUGGUU_______
(.((((((((((((((....))))))).............(((((((..................)))))))...(((..((((......)))))))))))))).)........... (-24.63 = -25.17 +   0.54)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:00:09 2006