Locus 3650

Sequence ID 3R_DroMel_CAF1
Location 9,863,876 – 9,863,966
Length 90
Max. P 0.714180
window5867

overview

Window 7

Location 9,863,876 – 9,863,966
Length 90
Sequences 4
Columns 108
Reading direction reverse
Mean pairwise identity 81.61
Mean single sequence MFE -26.20
Consensus MFE -15.40
Energy contribution -15.28
Covariance contribution -0.12
Combinations/Pair 1.13
Mean z-score -2.11
Structure conservation index 0.59
SVM decision value 0.38
SVM RNA-class probability 0.714180
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9863876 90 - 27905053
GAUGGAGGUGUGGCAAAUUGAACACAUGUUCAUUGCCAAAUUCUUGAAUUAAAUUGGCAACGAGCAU------------------UUCCAAAUUGAUAAUCAACAAAA
..((((((((((((((..(((((....))))))))))................(((....)))))))------------------))))).................. ( -25.40)
>DroSec_CAF1 68159 108 - 1
GGUGGAGGUGUGGCAAAUUGAACACAUGUUCAUUGCCAAAUUCUUGAAUUAAAUUGGCUAUGGGCAUCAGCAAUAUCAUGCAGGUUUCACAAUUGAUAGAUCACAAAA
.(((((((..((((((..(((((....)))))))))))...))))......(((((((.....))....(((......)))........))))).......))).... ( -24.50)
>DroSim_CAF1 70840 107 - 1
GGUGGAGGUGUGGCAAAUUGAACACAUGUUCAUUGCCAAAUUCUUGAAUUAAAUUGGCUAUGGGCAUCAGCAAUAUCAUGCAGGUUUCCCAAUUGAUA-AUCACAAAA
.(((((((..((((((..(((((....)))))))))))...))))...............((((.(((.(((......))).)))..)))).......-..))).... ( -26.70)
>DroYak_CAF1 70053 107 - 1
GGAGGAGGUGUGGCCAAUUGAGCACAUGUUCAUUGCCAAAUCCUUGAAUUAAAUUGCCCAUGGACAUCGGCAAUAGCAUUCAGGUGUUCAAAUUGAUA-AUCACAAAA
.(((((....((((....(((((....)))))..))))..)))))((((...((((((.((....)).))))))...))))..(((.((.....))..-..))).... ( -28.20)
>consensus
GGUGGAGGUGUGGCAAAUUGAACACAUGUUCAUUGCCAAAUUCUUGAAUUAAAUUGGCUAUGGGCAUCAGCAAUAUCAUGCAGGUUUCCAAAUUGAUA_AUCACAAAA
....((((..((((((..(((((....)))))))))))...))))............................................................... (-15.40 = -15.28 +  -0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:06:34 2006