Locus 4160

Sequence ID 3L_DroMel_CAF1
Location 12,147,878 – 12,147,978
Length 100
Max. P 0.884790
window6458

overview

Window 8

Location 12,147,878 – 12,147,978
Length 100
Sequences 6
Columns 103
Reading direction reverse
Mean pairwise identity 72.78
Mean single sequence MFE -27.20
Consensus MFE -16.38
Energy contribution -15.63
Covariance contribution -0.75
Combinations/Pair 1.36
Mean z-score -1.61
Structure conservation index 0.60
SVM decision value 0.93
SVM RNA-class probability 0.884790
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12147878 100 - 23771897
GCGCUUGGCCUCUGAGAUGGCCUCU-UUGGAUGUCUUGGAGAUAUGCAGCUCAUCCUGGCCACCCACUUCGCCGAGCCAUUCCAUUUCAUUUCCCU--GGCCA
(.(((((((...((.(.(((((...-..(((((..(((.(....).)))..))))).))))).)))....))))))))..................--..... ( -30.00)
>DroSec_CAF1 25174 83 - 1
GCGCUUGGCCUCCGAGAUGGCCUCU-UUGGAUGUCUUGGAGAUAUGCAGCUCAUCCU-----------------AGCCAUUCCAUUUCAUUUCCCC--GGCCA
.....(((((((((((((..((...-..))..))))))))((.(((..(((......-----------------))).....))).))........--))))) ( -24.50)
>DroSim_CAF1 25481 83 - 1
GCGCUUGGCCUCCGAGAUGGCCUCU-UUGGAUGUCUUGGAGAUAUGCAGCUCAUCCU-----------------AGCCAUUCCAUUUCAUUUCCCC--GGCCA
.....(((((((((((((..((...-..))..))))))))((.(((..(((......-----------------))).....))).))........--))))) ( -24.50)
>DroEre_CAF1 22525 87 - 1
GCGGCUGG-CUCUGAGAUGGCCUCU-UCGGAUGUCUUGGAGAUAUGCAGCUCAUCCUUGCC--U----------UGCCAUUCCAUUUCAUUUCCCU--UGCCA
..(((.((-...((((((((.....-..(((((..(((.(....).)))..)))))..((.--.----------.))....))))))))....)).--.))). ( -23.50)
>DroYak_CAF1 25378 98 - 1
GCAGCUGACCUCCGAGAUGGCCUCU-UUGGAUGUCUUGGAGAUAUGCAGCUCAUCCCUGCC--UCACCUCGUACUGCCAUUCCAUUUCAUUUCCCU--UGCCA
((((...(((((((((((..((...-..))..)))))))))....((((.......)))).--.......)).))))...................--..... ( -24.50)
>DroPer_CAF1 25844 81 - 1
GCAGCUGGCCUCGGGGAA-ACCUCUCUUGGCCUGCCCGGAGUGAUGCAGGGCGUCCGU---------------------AUCAGUUUCUCCUCCAUGCUGCGC
((((((((....((((((-((..((((.((....)).))))((((((.((....))))---------------------)))))))))))).))).))))).. ( -36.20)
>consensus
GCGCCUGGCCUCCGAGAUGGCCUCU_UUGGAUGUCUUGGAGAUAUGCAGCUCAUCCUU________________AGCCAUUCCAUUUCAUUUCCCU__GGCCA
(((......(((((((((..((......))..)))))))))...)))........................................................ (-16.38 = -15.63 +  -0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:15:47 2006