Locus 1911

Sequence ID 3R_DroMel_CAF1
Location 5,435,777 – 5,435,895
Length 118
Max. P 0.981104
window3142

overview

Window 2

Location 5,435,777 – 5,435,895
Length 118
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 86.17
Mean single sequence MFE -27.16
Consensus MFE -23.60
Energy contribution -24.20
Covariance contribution 0.60
Combinations/Pair 1.00
Mean z-score -2.17
Structure conservation index 0.87
SVM decision value 1.88
SVM RNA-class probability 0.981104
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5435777 118 + 27905053
AAGCAAAUUCUUGCAGUAAAAGU--AAAUGCGAUUUGGCCAGAAAACGAGCUCAAGUUCGGACAGCAGGUGGCAAAUUGUUUUGGCACAUGCCAUCAGCCAAACAACCAAAAAAAAAAAA
..(((....(((.......))).--...)))(.((((((.......(((((....)))))((..(((.(((.((((....)))).))).)))..)).)))))))................ ( -29.40)
>DroSec_CAF1 22512 100 + 1
AAGCAAAUUCUUGCAGUAAAAGU--AAAUGCGAUUUGGCCAGAAAACGAGCUCAAGUUCGGACAGCAGGUGGCAAAUUGUUUUGGCACAUGCCAAGAGCCAA------------------
..(((....(((.......))).--...)))...((((((......(((((....)))))....(((.(((.((((....)))).))).)))...).)))))------------------ ( -26.80)
>DroSim_CAF1 17532 116 + 1
AAGCAAAUUCUUGCAGUAAAAGU--AAAUGCGAUUUGGCCAGAAAACGAGCUCAAGUUCGGACAGCAGGUGGCAAAUUGUUUUGGCACAAGCCAAGAGCCAACAAAC-AAACAAAAAAA-
..(((....(((.......))).--...)))...((((((......(((((....)))))....((..(((.((((....)))).)))..))...).))))).....-...........- ( -26.00)
>DroEre_CAF1 22934 109 + 1
UAGCAAAUUCUUGCAGUAAAAGU--AAAUGCGAUUUGGGAUGAAAACGAGCUCAAGUUCGGACAGCAGGUGGCAAAUUGUUUUGGCACAUGCCCAGAGCCAAA--------CAAAAAAA-
..((......(((((........--...)))))(((((........(((((....)))))....(((.(((.((((....)))).))).))))))))))....--------........- ( -26.50)
>DroYak_CAF1 23361 106 + 1
AAGCAAAUUCUUGCAGUAAAAGUAUAAAUGCGAUUUGGGAUGAAAACGAGCUCAAGUUCGGACAGCAGGUGGCAAAUUGUUUUGGCACAUGCCAAAAGCCAAG-------------AGC-
.......(((((((..............(((.(((((...((....(((((....)))))..)).))))).))).....(((((((....)))))))).))))-------------)).- ( -27.10)
>consensus
AAGCAAAUUCUUGCAGUAAAAGU__AAAUGCGAUUUGGCCAGAAAACGAGCUCAAGUUCGGACAGCAGGUGGCAAAUUGUUUUGGCACAUGCCAAGAGCCAAA_________AAAAAAA_
..((((....))))....................(((((.......(((((....)))))....(((.(((.((((....)))).))).))).....))))).................. (-23.60 = -24.20 +   0.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:22:38 2006