Locus 4084

Sequence ID 3R_DroMel_CAF1
Location 11,142,067 – 11,142,177
Length 110
Max. P 0.990859
window6544

overview

Window 4

Location 11,142,067 – 11,142,177
Length 110
Sequences 5
Columns 110
Reading direction forward
Mean pairwise identity 76.54
Mean single sequence MFE -41.04
Consensus MFE -27.64
Energy contribution -28.88
Covariance contribution 1.24
Combinations/Pair 1.30
Mean z-score -2.34
Structure conservation index 0.67
SVM decision value 2.24
SVM RNA-class probability 0.990859
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11142067 110 + 27905053
UUGGGUCUGGUCUUGGCCAUUGCCAUUGGCAUGGUAUUGAAGCGGUGCGACGGUAGCAGGGAAGAGGGGAAGGAAGAGGCGAUCAGCGAGCGGAGCGGACCAGGCCCAAA
(((((((((((((...((.((((.((((((((.((......)).))))..)))).))))...................((.....))....))...))))))))))))). ( -40.50)
>DroSec_CAF1 1768 110 + 1
UUGGGUCUGGUCUUGGCCAUUGCCAUUGGCGUGGCAUUGGAGCGGUGCGGCGGGAGCAGAGAAGAGAGGAAGGAAGAGACGAUCAGCGAGCGGAGCGGACCAGGCCCAAA
(((((((((((((...(((.((((((....)))))).))).((..(((.((....))......((..(...........)..)).....)))..))))))))))))))). ( -46.30)
>DroSim_CAF1 2138 110 + 1
UUGGGUCUGGUCUUGGCCAUUGCCAUUGGCUUGGUAAUGGAGCAGUGCGGCGGGAGCAGGGUAAAAGGGAAGGAAGAGACGAUCAGCGAGCGGAGCGGACCAGGCCCAAA
(((((((((((((...(((((((((......))))))))).((..(((.((....))..................((.....)).....)))..))))))))))))))). ( -45.80)
>DroEre_CAF1 1846 101 + 1
UCUGGUCUGGUCUGGGCCAUUGCCAUUGGCACGGCAUUGGAGUGGUGCGGAGGGAGGCGAGG--CG----AGG---AGGAACCCAGCGAGCGGAGUGGACCAGGCCCAAA
...(((((((((((..((.(((((.((.((((.((......)).)))).))....))))).(--(.----.((---.....))..))....))..))))))))))).... ( -43.10)
>DroYak_CAF1 2251 86 + 1
-----ACUGGUCUGGGCCAUUGCCAUUGG-----UAUUGGAGUGGUGCGGAGAGAGG-------AG----CGG---AGGAGCCCAGCAAGCGGAGUGGACCGGGCCCAAA
-----...(((((((.(((((.((.((.(-----((((.....))))).))....((-------.(----(..---....)))).......))))))).))))))).... ( -29.50)
>consensus
UUGGGUCUGGUCUUGGCCAUUGCCAUUGGCAUGGUAUUGGAGCGGUGCGGCGGGAGCAGAGAA_AG_GGAAGGAAGAGGCGAUCAGCGAGCGGAGCGGACCAGGCCCAAA
(((((((((((((...((.((((.....((((.((......)).)))).............................((...)).))))..))...))))))))))))). (-27.64 = -28.88 +   1.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:17:46 2006