Locus 454

Sequence ID 2R_DroMel_CAF1
Location 2,601,306 – 2,601,405
Length 99
Max. P 0.872463
window867

overview

Window 7

Location 2,601,306 – 2,601,405
Length 99
Sequences 6
Columns 113
Reading direction forward
Mean pairwise identity 71.82
Mean single sequence MFE -33.42
Consensus MFE -14.89
Energy contribution -14.53
Covariance contribution -0.36
Combinations/Pair 1.38
Mean z-score -1.97
Structure conservation index 0.45
SVM decision value 0.88
SVM RNA-class probability 0.872463
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 2601306 99 + 20766785
GCAGUU-----CGCAGUUG-GGCAAAGGAAAAGG--------AAAAGCUGAAACUGAAAAGCUGAAAAACUGAAGGAGCUGCAGCUCGGGCGGCGGCGCAUGCGCUCAUAAAU
((((((-----(.(((((.-(((..((....((.--------.....))....)).....)))....)))))...))))))).....(((((.((.....)))))))...... ( -26.20)
>DroPse_CAF1 40757 100 + 1
GCAGAUGCGGACGCAGUUGCAGUAGUGGAAAAGUGCAG----CCAAGCCAGGCCGGGCA--------GGCAGGCAGGGCCGCCAGU-AAGCGGCGGCGCAUGCGCCCAUAAAU
((((.(((....))).))))....((((....((((.(----((..(((..(((.....--------))).)))...(((((....-..))))))))))))....)))).... ( -43.10)
>DroSec_CAF1 35486 99 + 1
GCAGUU-----CGCAGUUG-GGCAAAGGAAAAGG--------AAAAGCUGAGGCUGAAAAGCUGAAAAAUUGAAGGAGCUGCAGCUCGGGCGGCGGCGCAUGCGCUCAUAAAU
((((((-----(.(((((.-..(..........)--------...))))).((((....))))............))))))).....(((((.((.....)))))))...... ( -28.00)
>DroSim_CAF1 34988 91 + 1
GCAGUU-----CGCAGUUG-GGCAAAGGAAAAGG--------AAAAGCUGAGGCUGAAA--------AACUGAAGGAGCUGCAGCUCGGGCGGCGGCGCAUGCGCUCAUAAAU
((((((-----(.(((((.-(((...((......--------.....))...)))....--------)))))...))))))).....(((((.((.....)))))))...... ( -26.40)
>DroYak_CAF1 33819 99 + 1
GCAGUU-----CGCAGUUG-GGCAAAGGAAAAGCUGAGGUUCAAAAGCUGAGGCUGAAA--------AGCUGAAGGAGCUGCAGAUCGGGCGGCAGCGAAUGCGCUCAUAAAU
((((((-----(((..(((-(((..((......))...))))))..))...((((....--------))))....))))))).....(((((.((.....)))))))...... ( -34.80)
>DroPer_CAF1 48210 100 + 1
GCAGAUGCGGACGCAGUUGCAGUAGAGGAAAAGUGCAG----CCAAGCCAGGCCGGGCA--------GGCAGGCAGGGCCGCCAGU-AAGCGGCGGCGCAUGCGCCCAUAAAU
((....))((.((((((((((.(........).)))))----)...(((..(((.....--------))).))).(.((((((...-....)))))).).)))).))...... ( -42.00)
>consensus
GCAGUU_____CGCAGUUG_GGCAAAGGAAAAGG________AAAAGCUGAGGCUGAAA________AACUGAAGGAGCUGCAGCUCGGGCGGCGGCGCAUGCGCUCAUAAAU
.............(((((...((.......................))...))))).....................(((((.......)))))((((....))))....... (-14.89 = -14.53 +  -0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:38:58 2006