Locus 6667

Sequence ID 3R_DroMel_CAF1
Location 17,536,697 – 17,536,797
Length 100
Max. P 0.685138
window10843

overview

Window 3

Location 17,536,697 – 17,536,797
Length 100
Sequences 6
Columns 115
Reading direction forward
Mean pairwise identity 80.70
Mean single sequence MFE -24.41
Consensus MFE -16.67
Energy contribution -17.03
Covariance contribution 0.36
Combinations/Pair 1.05
Mean z-score -1.54
Structure conservation index 0.68
SVM decision value 0.32
SVM RNA-class probability 0.685138
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17536697 100 + 27905053
CUCCUUGGCCAAGUUAAUUUGUUGACUGCCAGCAACUUGCUCUAAUGCAUGCAGGCAGAC----UUCCCCAGCGCACCG---------ACAUCCCCG--CCCCACUUCCUCCGAG
...(((((..((((...........(((((.(((...(((......)))))).)))))..----.......(((.....---------.......))--)...))))...))))) ( -21.50)
>DroSec_CAF1 45442 100 + 1
CUCCUUGGCCAAGUUAAUUUGUUGACUGCCUGCAACUUGCUCUAAUGCAUGCAGGCAGAC----UUCCCCAGCUCACCA---------AAAUCCCCG--CCCCACUUGCUCCGAG
...(((((.(((((...........(((((((((...(((......))))))))))))..----.......((......---------........)--)...)))))..))))) ( -27.84)
>DroSim_CAF1 46338 100 + 1
CUCCUUGGCCAAGUUAAUUUGUUGACUGCCUGCAACUUGCUCUAAUGCAUGCAGGCAGAC----UUCCCCAGCUCACCA---------ACAUCCCCG--CCCCACUUGCUCCGAG
...(((((.(((((.....(((((.(((((((((...(((......)))))))))))).(----(.....)).....))---------)))......--....)))))..))))) ( -29.06)
>DroEre_CAF1 45921 108 + 1
CUCCUUCGCCAAGUUAAUUUGUUGACUGCCUGCAACUUGCUCUAAUGCAUGCAGGCAGAG----UUCCCCAGCUCCCC-ACGUUCCCGACAUCCCCG--CCUUACUUCUUCCGAG
.....(((..((((.....(((((..((((((((...(((......)))))))))))(((----(......))))...-.......)))))......--....))))....))). ( -25.16)
>DroYak_CAF1 40506 109 + 1
CUCCUUUGCCAAGUUAAUUUGUUGACUGCCUCCAACUUGCUCUAAUGCAUGCAGGCAAAA----UACGCGAGCUCUCCGACGUUCCCGCCAUCCCCG--CCUGCUUUCUUCCGAG
.......((..((((((....))))))))(((.....(((......))).((((((....----..((.((((........)))).))........)--)))))........))) ( -21.94)
>DroAna_CAF1 44948 106 + 1
CUCCUCCACGAAGUUAAUUUGUUGACUGCCUGCAACUUGCUCUAAUGCAUGCAGACUGACGCCGUUCCCCAGCCCUCCA---------CCGGUCUCUUCUCUGACUUUUCCCGGG
..(((....(((((((.......(((((.(((((...(((......)))))))).(((...........))).......---------.))))).......)))))))....))) ( -20.94)
>consensus
CUCCUUGGCCAAGUUAAUUUGUUGACUGCCUGCAACUUGCUCUAAUGCAUGCAGGCAGAC____UUCCCCAGCUCACCA_________ACAUCCCCG__CCCCACUUCCUCCGAG
(((........((((((....))))))(((((((...(((......))))))))))........................................................))) (-16.67 = -17.03 +   0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:27:07 2006