Locus 353

Sequence ID 2L_DroMel_CAF1
Location 1,108,118 – 1,108,222
Length 104
Max. P 0.918880
window559

overview

Window 9

Location 1,108,118 – 1,108,222
Length 104
Sequences 6
Columns 109
Reading direction forward
Mean pairwise identity 79.17
Mean single sequence MFE -41.15
Consensus MFE -27.92
Energy contribution -28.90
Covariance contribution 0.98
Combinations/Pair 1.33
Mean z-score -2.04
Structure conservation index 0.68
SVM decision value 1.12
SVM RNA-class probability 0.918880
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1108118 104 + 22407834
UGUUGUUGUUGGGUG-AGCAGUGGGUGGCACUCGCAGUGCUUUUUGCACGGCCGCCGCCCGAUUUGCACUCAGCAAGCGAUACAUUCCGAUG----AACUGCAGCUAGA
(((((((((((((((-.....((((((((....((.((((.....)))).)).)))))))).....)))))))).)))))))..........----............. ( -41.00)
>DroVir_CAF1 34985 103 + 1
-GCAACUGUUUGUUGAGGCAGGCGUUGGCAGCCGCAGCACCCGUUGCAUGGCUGUGGCACGAUUGCCGCCCAACAAACGAUACAUUUUGACUGUGCAAUUGCAA-----
-((((..((((((((.(((.(((((((...((((((((............)))))))).))).)))))))))))))))(.((((.......)))))..))))..----- ( -41.70)
>DroSec_CAF1 26679 100 + 1
----GUUGUUGGGUG-AGCAGUGGGUGGCACUCGCAGUGCUUUUUGCACGGCCGCCGCCCGAUUUGCAGUCAGCAAGCGAUACAUUCCGAUG----AACUGCAGCUAGA
----.(((((((.((-.....((((((((....((.((((.....)))).)).)))))))).....)).)))))))(((...(((....)))----...)))....... ( -36.20)
>DroSim_CAF1 26498 104 + 1
UGUUGUUGUUGGGUG-AGCAGUGGGUGGCACUCGCAGUGCUUUUUGCACGGCCGCCGCCCGAUUUGCACUCAGCAAGCGAUACAUUCCGAUG----AACUGCAGCUAGA
(((((((((((((((-.....((((((((....((.((((.....)))).)).)))))))).....)))))))).)))))))..........----............. ( -41.00)
>DroEre_CAF1 29453 104 + 1
UGUAGUUGCUGGGUG-AGCGGUGGGUGGGCCUCGCAGUGCUUUUUGCACGGCUGCCGCCCGAUUUGCACCCAACAGGCGGUACAUUUCGAUG----AGCUGCAGCUAGA
..(((((((((((((-.....((((((((((..((((......))))..)))..))))))).....)))))).((..(((......))).))----....))))))).. ( -42.80)
>DroYak_CAF1 27730 104 + 1
UGUAGUUGUUGGGUG-AGCGGUGGGCGGUAUUCGCAGUGCCUUUUGCACGGCUGCCGCCCGAUUUGCACCCAACAAACGAUACAUUCCGAUA----AGUUGCAGCUAGA
((((.((((((((((-.....(((((((((...((.((((.....)))).))))))))))).....))))))))))....))))........----(((....)))... ( -44.20)
>consensus
UGUAGUUGUUGGGUG_AGCAGUGGGUGGCACUCGCAGUGCUUUUUGCACGGCCGCCGCCCGAUUUGCACCCAACAAGCGAUACAUUCCGAUG____AACUGCAGCUAGA
.....((((((((((......((((((((....((.((((.....)))).)).)))))))).....))))))))))................................. (-27.92 = -28.90 +   0.98)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:33:45 2006