Locus 4400

Sequence ID 3L_DroMel_CAF1
Location 12,885,780 – 12,885,888
Length 108
Max. P 0.931725
window6823

overview

Window 3

Location 12,885,780 – 12,885,888
Length 108
Sequences 6
Columns 119
Reading direction forward
Mean pairwise identity 71.45
Mean single sequence MFE -30.11
Consensus MFE -12.46
Energy contribution -14.28
Covariance contribution 1.82
Combinations/Pair 1.16
Mean z-score -2.14
Structure conservation index 0.41
SVM decision value 1.22
SVM RNA-class probability 0.931725
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12885780 108 + 23771897
GCAUUUCCUGAAAAUAAACACCUGUCAUUCAGGUGGGCGAAUGGAAGUGUGAGG--------AAGUGUAGCCUAUUUGCAAGAAAGGGG-GUACAAAUUAUUUCCAGCAG--CGGAAAG
...(((((..........((((((.....)))))).((...((((((((.....--------...((((.(((.(((.....))).)))-.))))...))))))))...)--)))))). ( -33.30)
>DroVir_CAF1 24621 89 + 1
GAAUUU-CCGAAAAUAAACACCUGUCUUUAAU---------UG---------GA--------AAGCCCACCCAAUUCG--ACCGCC-CAGCUGCAAUUGAUUUACAGGGGGCUGUACAU
....((-((((......((....))......)---------))---------))--------)(((((.((....(((--(..((.-.....))..))))......)))))))...... ( -17.80)
>DroSec_CAF1 11953 107 + 1
GCAUUUCCUGAAAAUAAACACCUGUCAUUCAGGUGGGCGAAUGGAAGUGUGAGG--------AAGUGCAGCCUAUUUGCAAGAACG-UU-GUACAAAUUAUUUCCAGCAG--CGGAAAG
...(((((..........((((((.....)))))).((...((((((((.....--------..(((((((..............)-))-))))....))))))))...)--)))))). ( -31.64)
>DroSim_CAF1 9746 107 + 1
GCAUUUCCUGAAAAUAAACACCUGUCAUUCAGGUGGGCGAAUGGCAGUGUGAGG--------AAGUGCAGCCUAUUAGCAAGAACG-UU-GUACAAAUUAUUUCCACAAG--CGGAAAG
(((((((((.........((((((((((((........))))))))).))))))--------)))))).((......)).......-..-..........(((((.....--.))))). ( -32.10)
>DroEre_CAF1 16863 115 + 1
GCAUUUUCCGAAAAUAAACACCUGUCAUUCAGGUGGGCGAAUGGGAGUGUGGGAAGUGUGUGAAGUGCAGCCUCUUCGCAAGAAUG-UA-GUACAAAUUAUUUCCAGCAG--CGGAAAG
....((((((........(((((.((((((........)))))).)).)))(((((((......((((.((...(((....))).)-).-))))....))))))).....--)))))). ( -33.50)
>DroYak_CAF1 13136 95 + 1
GCAUUUUCGGAAAAUAAACACCUGUCAUUCAGGUGGGCGAUGGGGAGUGGGAGAACUG--------------------CGAGAACG-CA-GUACAAAUUAUUUCCAGCAG--CGGAAAG
...((((((.........((((((.....)))))).((....((((((((..(.((((--------------------((....))-))-)).)...)))))))).))..--)))))). ( -32.30)
>consensus
GCAUUUCCUGAAAAUAAACACCUGUCAUUCAGGUGGGCGAAUGGAAGUGUGAGA________AAGUGCAGCCUAUUCGCAAGAACG_UA_GUACAAAUUAUUUCCAGCAG__CGGAAAG
((((((((..........((((((.....)))))).......))))))))..................................................(((((........))))). (-12.46 = -14.28 +   1.82)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:21:43 2006