Locus 1958

Sequence ID 3L_DroMel_CAF1
Location 5,426,039 – 5,426,134
Length 95
Max. P 0.975311
window3064

overview

Window 4

Location 5,426,039 – 5,426,134
Length 95
Sequences 5
Columns 118
Reading direction reverse
Mean pairwise identity 81.32
Mean single sequence MFE -28.50
Consensus MFE -19.12
Energy contribution -19.00
Covariance contribution -0.12
Combinations/Pair 1.10
Mean z-score -2.56
Structure conservation index 0.67
SVM decision value 1.75
SVM RNA-class probability 0.975311
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5426039 95 - 23771897
CCUCCAAUUUUA---------------------CCCGGAAAAG--CCAGCUUCUGCUACUCUUGGAUAGUUGGCGGCAGCUCGUUGCCAUAAUUUACUCAACUGUUGUCUCAGUUGCA
..(((.......---------------------...)))...(--(((((((((.........))).)))))))(((((....)))))..........((((((......)))))).. ( -26.20)
>DroSec_CAF1 21627 116 - 1
CCUUCAAUUUUCCCCAACCUCCCUCCCGAUUUUCCCGGAAAAG--CCAGCUUCUGCUACUCUUGGAUAGUUGGCGGCAGCUCGUUGCCAUAAUUUACUCAACUGUUGUCUCAGUUGCA
.......((((((......((......)).......))))))(--(((((((((.........))).)))))))(((((....)))))..........((((((......)))))).. ( -28.02)
>DroEre_CAF1 22336 105 - 1
CCCCCAAUUUUUC-CAACCCC----------UUUUCGGAAAAG--CCAGCUUCUGCUGCUCUUGGAUAGUUGGCGGCAGCUCGUUGCCAUAAUUUACUCAACUGUUGUCUCAGUUGCA
...((((((..((-(((..((----------.....))...((--(.(((....)))))).))))).)))))).(((((....)))))..........((((((......)))))).. ( -29.90)
>DroYak_CAF1 21311 105 - 1
CCUCCAAUUUUCC-CAACCUC----------UUUUCGGAAAAG--CCAGCUUCUGCUACUCUUGGAUAGUUGGCGGCAGCUCGUUGCCAUAAUUUACUCAACUGUUGUCUCAGUUGCA
.......((((((-.((....----------..)).))))))(--(((((((((.........))).)))))))(((((....)))))..........((((((......)))))).. ( -28.70)
>DroAna_CAF1 36145 95 - 1
GGCC--UUCUCA---------------------CCACCAAGAGUUCCAAGUUGUGCUACUCUUGGAUAGUUGGCGGCAGCUCGUUGCCAUAAUUUACUCAACUGUUGUCUCAGUUGCA
.(((--..((..---------------------...((((((((..((.....))..))))))))..))..)))(((((....)))))..........((((((......)))))).. ( -29.70)
>consensus
CCUCCAAUUUUAC_CAACC_C__________UUCCCGGAAAAG__CCAGCUUCUGCUACUCUUGGAUAGUUGGCGGCAGCUCGUUGCCAUAAUUUACUCAACUGUUGUCUCAGUUGCA
.............................................((((((....(((....)))..)))))).(((((....)))))..........((((((......)))))).. (-19.12 = -19.00 +  -0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:21:04 2006