Locus 7104

Sequence ID 2L_DroMel_CAF1
Location 19,904,922 – 19,905,016
Length 94
Max. P 0.740000
window11343

overview

Window 3

Location 19,904,922 – 19,905,016
Length 94
Sequences 6
Columns 109
Reading direction forward
Mean pairwise identity 76.27
Mean single sequence MFE -28.07
Consensus MFE -14.15
Energy contribution -13.82
Covariance contribution -0.33
Combinations/Pair 1.33
Mean z-score -1.92
Structure conservation index 0.50
SVM decision value 0.45
SVM RNA-class probability 0.740000
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19904922 94 + 22407834
GCUCC---CCAGAAGCACUCGAUGCUGGACAAGCUGAAGCUCUUCAACAAGGAGAAGCAACAGAAUGCGGUAAACGCCGCC------UCGGUGGC---CAGCA---AAA
(((..---.....)))......((((((....(((((.(((((((.....)))).)))........(((((....))))).------)))))..)---)))))---... ( -31.70)
>DroVir_CAF1 133934 100 + 1
GCGCC---GCAGAAGCACUCAAUGCUGGACAAGCUGAAGCUGUUCAACAAGGAGAAGCAACAGAAUGCAGCAAAUGCGACA---GCAGCAGUUGCAUCCAAUA---AAA
((...---((....)).(((..((.((((((.((....)))))))).))..)))..))....(.(((((((...(((....---)))...))))))).)....---... ( -29.90)
>DroGri_CAF1 120876 97 + 1
GCACC---GCAGAAGCACUCAAUGCUGGACAAGCUGAAGCUCUUCAACAAGGAGAAGCAACAGAAUGCGGCAAAUGCAGC------CGCUGUCGCCUCGAAUA---AAA
.....---((...((((.....)))).((((..(((..(((((((.....)))).)))..)))...(((((.......))------)))))))))........---... ( -27.90)
>DroWil_CAF1 148625 88 + 1
GCUCC---ACAGAAACACUCCAUGUUGGACAAGUUGAAACUCUUCAAUAAGGAGAAGCAACAACAGGCAGC------AGUA------ACAGUUGC---AAACA---AGA
.....---.........((((.(((((((..(((....))).))))))).))))..(((((.....((...------.)).------...)))))---.....---... ( -18.20)
>DroMoj_CAF1 218808 106 + 1
GCUCC---GCAGAAGCACUCGAUGCUGGACAAGCUGAAGCUCUUCAACAAGGAGAAGCAACAGAACGCGGCCAAUGCAGCCGCCGCCGCAGUUGCAUGCAACAAGCAAA
(((((---((...((((.....)))).......(((..(((((((.....)))).)))..)))...))))...(((((((.((....)).)))))))......)))... ( -32.60)
>DroAna_CAF1 96454 97 + 1
GCUCCUGUCCAGAAGCACUCCAUGCUGGACAAACUGAAGCUGUUCAACAAGGAGAAGCAGCAGAAUGCAGCCAACGCCGCC------UCGGUGGU---CAGCA---AGU
(((.((....)).))).((((.((.((((((.........)))))).)).))))..(((......))).((....(((((.------...)))))---..)).---... ( -28.10)
>consensus
GCUCC___GCAGAAGCACUCAAUGCUGGACAAGCUGAAGCUCUUCAACAAGGAGAAGCAACAGAAUGCAGCAAAUGCAGCC______GCAGUUGC___CAACA___AAA
((...........((((.....)))).......(((..(((((((.....)))).)))..)))...)).......(((((..........))))).............. (-14.15 = -13.82 +  -0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:27:35 2006