Locus 4041

Sequence ID 3L_DroMel_CAF1
Location 11,783,486 – 11,783,603
Length 117
Max. P 0.573801
window6290

overview

Window 0

Location 11,783,486 – 11,783,603
Length 117
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 78.98
Mean single sequence MFE -36.05
Consensus MFE -21.66
Energy contribution -21.72
Covariance contribution 0.06
Combinations/Pair 1.23
Mean z-score -1.54
Structure conservation index 0.60
SVM decision value 0.08
SVM RNA-class probability 0.573801
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11783486 117 + 23771897
CGACAAGGGACACAUAGUCAUUGAGACAGAUGGAGGA---AAAUUUCUCGACUGACAGGUGGGAGAAUAUGAGCUGUAAGUGAUUCUUACGCCCACCAGCUCGAAUAUCCCAUUCGCAGU
...(((..(((.....))).))).........(((((---....))))).((((.(..((((((..((.(((((((...(((.......)))....))))))).)).))))))..))))) ( -33.20)
>DroSec_CAF1 3637 117 + 1
CGAUAAGGGACACAUAGUCAUUGUCACAAAUGGAGGA---AAAUUCCUCGACUGACAGGUGGGAGAAUAUGAGCUGUAAAUGAUUCUUACGCCCACCAGCUCGAAUAUCCCAUUCGCAGU
.(((((..(((.....))).))))).......(((((---....))))).((((.(..((((((..((.(((((((....................))))))).)).))))))..))))) ( -36.55)
>DroSim_CAF1 3625 117 + 1
CGAUAAGGGACACAUAGUCAUUGUCGCAAAUGGAGGA---AAAUUCCUCGACUGACAGGUGGGAGAAUAUGAGCUGUAAAUGAUUCUUACGCCCACCAGCUCGAAUAUCCCAUUCGCAGU
((((((..(((.....))).))))))......(((((---....))))).((((.(..((((((..((.(((((((....................))))))).)).))))))..))))) ( -37.35)
>DroEre_CAF1 3751 117 + 1
CUAUAACGGACACGUAGUCAUGGCUGCAGCUGGAGAA---AAAUCGCUCCACUGACAAGUGGGAGAAUAUGAGCUGCAAGUGAUUCUUCCGCCCACCAGCUCGAAUAUCCCAUUCGCAGU
.............(((((....)))))....((((..---......))))((((.(.(((((((..((.(((((((...(((.......)))....))))))).)).))))))).))))) ( -36.40)
>DroYak_CAF1 3647 117 + 1
CUAUAACGGACACGUAGUCAUGGGGACAGCCUUCGAA---AAAUUGCUCCACUGACAGGUGGGAGAAUACGAGCUCCAGGUGAUUCUUCCGUCCACCAGCUCGAAUAUCCCACUCGCAGU
.....(((....))).(((((((((.(((........---...)))))))).)))).(((((((..((.((((((...((((...........)))))))))).)).)))))))...... ( -36.60)
>DroMoj_CAF1 7910 120 + 1
CGCCCAGCAGCACAUAGUCGAAGUCGCAGCUAUUCGGACCCAGUUGCUCGACGGCCAAGUGGGAGAAGGCCAACUGGAUGUGAUUACUUCUACCUCCGGCCCGUAUGUCCCACUCGCAGU
......((.((.....(((((....((((((..........))))))))))).))..(((((((.(.((((....(((.((((.....)).)).)))))))....).))))))).))... ( -36.20)
>consensus
CGAUAAGGGACACAUAGUCAUUGUCACAGAUGGAGGA___AAAUUGCUCGACUGACAGGUGGGAGAAUAUGAGCUGUAAGUGAUUCUUACGCCCACCAGCUCGAAUAUCCCAUUCGCAGU
........(((.....)))...............................((((.(.(((((((.....(((((((....................)))))))....))))))).))))) (-21.66 = -21.72 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:13:02 2006