Locus 7863

Sequence ID X_DroMel_CAF1
Location 19,584,628 – 19,584,746
Length 118
Max. P 0.758232
window12901

overview

Window 1

Location 19,584,628 – 19,584,746
Length 118
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 80.80
Mean single sequence MFE -35.12
Consensus MFE -22.18
Energy contribution -24.22
Covariance contribution 2.04
Combinations/Pair 1.04
Mean z-score -1.93
Structure conservation index 0.63
SVM decision value 0.49
SVM RNA-class probability 0.758232
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19584628 118 + 22224390
GAUAACUUGUUCGAUAGCUCUUCGUUCA--GAAAUAGCCAGAUUUGGCGGCGAAAUAGCUGCCCCCGCAGCGCCGCUGCCCGCACAUUGUCGUGGUAGCCAACACUAGCGCACAUCGCAC
(((((..(((.((...(((.(((.....--)))..))).......(((((((.....(((((....)))))..))))))))).))))))))(((.(((......))).)))......... ( -35.20)
>DroSec_CAF1 4654 118 + 1
GAUAACUCGUUCGAUAGCUCUUCGUUCA--GAAAUAGCCAGAUUUGGCCGAGAAAUAGCUGCCCCUGCAGCACCGCUGCCCGCACAUUGUCUUGGUAGCCAACACUGGCACAGAUCGAAC
........(((((((.....(((.....--)))...(((((..((((((((((....(((((....)))))...((.....))......)))))...)))))..)))))....))))))) ( -37.30)
>DroSim_CAF1 5203 118 + 1
GAUAACUCGUUCGAUAGCUCUUCGUUCA--GAAAUAGCCAGAUUUGGCCGAAAAAUAGCUGCCCCCGCAGCACCGCUGCCCGCACAUUGUCGUGGUAGCCAACACUGGCACAGAUCGAAC
........(((((((.....(((.....--)))...(((((..(((((.........(((((....)))))(((((.((.........)).))))).)))))..)))))....))))))) ( -38.40)
>DroEre_CAF1 4549 108 + 1
GAUAACUUGUUCGAUACCUC-UCAUCCAGAGAAAUAGCCAG-----------AAAUAGCUGCCUCCGCAGAACCGCUACCCACACUUUACCGAGGUAGCCAACACUGGCGCAGAUCGAAC
........(((((((...((-((.....))))....(((((-----------......((((....))))....(((((((..........).)))))).....)))))....))))))) ( -32.50)
>DroYak_CAF1 4220 107 + 1
GAUA------------UCUU-UCAUCCAGAGAAAUAGCCAGAUUUGGCCGGGAAAUAGCUACCACCGCAGCGCCGCUGCCCACACUUUACCGAGGUAGCCAACACUGGCACAGAUCGAAC
....------------((((-(.....)))))........(((((((((((......((((((...(((((...))))).....(......).)))))).....))))).)))))).... ( -32.20)
>consensus
GAUAACUCGUUCGAUAGCUCUUCGUUCA__GAAAUAGCCAGAUUUGGCCGAGAAAUAGCUGCCCCCGCAGCACCGCUGCCCGCACAUUGUCGUGGUAGCCAACACUGGCACAGAUCGAAC
........(((((((......((.......))....(((((................(((((....)))))...((((((.............)))))).....)))))....))))))) (-22.18 = -24.22 +   2.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:49:26 2006