Locus 6635

Sequence ID 2L_DroMel_CAF1
Location 18,635,699 – 18,635,818
Length 119
Max. P 0.738727
window10583

overview

Window 3

Location 18,635,699 – 18,635,818
Length 119
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 79.49
Mean single sequence MFE -30.66
Consensus MFE -18.00
Energy contribution -18.22
Covariance contribution 0.21
Combinations/Pair 1.28
Mean z-score -1.89
Structure conservation index 0.59
SVM decision value 0.44
SVM RNA-class probability 0.738727
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18635699 119 - 22407834
AACGCAUUUUUCGUCCAUAAUCUGAACAGUAAUGGUAUAGGCCAAAUCUAAUGAUAGCCUGAUAGCCCGGCUGAACAAUGGGGUUCAAUUUCGAAAGAAAAUCGUG-CCGCAGCGGCCAA
...((.........((((...((....))..))))..(((((...(((....))).)))))...))..(((((.....((.(((....((((....)))).....)-)).)).))))).. ( -30.80)
>DroSec_CAF1 108574 117 - 1
AACGCAUU--UCGUUCAUAAUCUGAACAAUUAUGGUAUAGGCCAAACCUAAUGAUAGCCUGAUAGCCCGGCUGAACAAUGUGGUUCAAUUUUGAAAGAAAAUCGUG-CCGCAGCGGCCAA
.((.(((.--..(((((.....)))))....)))))...((((...........(((((.(.....).))))).....((((((.(.(((((.....))))).).)-)))))..)))).. ( -29.30)
>DroSim_CAF1 110147 117 - 1
AACGCAUU--UCGUUCAUAAUCUGAACAAUUAUGGUAUAGGCCAAACCUAAUGAUAGCCUGAUAGCCCGGCUGAACAAUGUGGUUCAAUUUCGAAAGAAAAUCGUG-CCGGAGCGGCCAA
........--..(((((.....))))).....((((.(((((..............)))))...((((((((((((......))))).((((....)))).....)-)))).)).)))). ( -35.54)
>DroEre_CAF1 107490 112 - 1
AACGCAUU--UCGCCCAUAAUCUGAACAAUUAUGGUAUAGGCCAAACCUAAUGAUAGUC-----GCCCGGCUGAACAAUGUGGUUCGAUUUCGAAAGAAAAUCGUG-CCGCAGCGGCAAA
..(((...--(((.(((((((.......)))))))..((((.....)))).)))(((((-----....))))).....((((((.(((((((....).)))))).)-))))))))..... ( -33.40)
>DroYak_CAF1 108909 112 - 1
AACGCAUU--UCGUCCAUAAUCUAAACAAUUAUGGUAUAGGCCAAACAUAAUGAUAGUC-----GCCCGGCUGAACAAUGUGGUUCAAUUUCGAAAGAAAAUCGUG-CCGCAGCGGCCAA
........--....(((((((.......)))))))....((((...........(((((-----....))))).....((((((....((((....)))).....)-)))))..)))).. ( -30.80)
>DroAna_CAF1 98717 93 - 1
CAGUAAUU--UGGGCAAUAAUCUCAACAAUUAUGGCCCAGACCCGCCCAAAU----------------------ACAAUGCGAUCCAGUUUCGU-GGAAAAUCGCGGCAGCAGUGGUU--
......((--(((((.(((((.......))))).))))))).....(((...----------------------....(((((((((......)-)))...))))).......)))..-- ( -24.14)
>consensus
AACGCAUU__UCGUCCAUAAUCUGAACAAUUAUGGUAUAGGCCAAACCUAAUGAUAGCC_____GCCCGGCUGAACAAUGUGGUUCAAUUUCGAAAGAAAAUCGUG_CCGCAGCGGCCAA
..............(((((((.......)))))))....((((...........(((((.........))))).....(((((.....((((....)))).......)))))..)))).. (-18.00 = -18.22 +   0.21)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:16:04 2006