Locus 1107

Sequence ID 2R_DroMel_CAF1
Location 4,435,721 – 4,435,817
Length 96
Max. P 0.683638
window1957

overview

Window 7

Location 4,435,721 – 4,435,817
Length 96
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 69.61
Mean single sequence MFE -36.78
Consensus MFE -14.58
Energy contribution -14.98
Covariance contribution 0.40
Combinations/Pair 1.21
Mean z-score -1.78
Structure conservation index 0.40
SVM decision value 0.31
SVM RNA-class probability 0.683638
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4435721 96 + 20766785
GAAAGUUUCACCAGCUUUCUCAGCGCCGA----------AU-----CGAU------UG---CCGGCCAGCCGGAUAAGCCGAUUGGCAGCAACGGCGACGCCGCCAAUUUGAUGGGCUCG
(((((((.....)))))))...(.(((..----------((-----((((------((---.((((..((((.....(((....))).....))))...)))).))).))))).))).). ( -36.00)
>DroPse_CAF1 6364 114 + 1
GAAAGUUUCACCAGCUUUCUAAGUGCCAGCAGCUGUGGCAUCAUCCCGACUGAUACUGCCACAGGGCAGCAAGAGAAAUUCAAUGGGAACAAUGGGGAUACC------CUGCUGUCCUCA
....(((((......(((((...(((..((..((((((((..(((......)))..)))))))).)).)))..))))).......)))))..((((((((..------....)))))))) ( -37.82)
>DroSec_CAF1 5578 96 + 1
GAAAGUUUCACCAGCUUUCUCAGCGCCGA----------AU-----CGAU------UG---CCGGACAGCCGGAUAAGCCGAACGGCAGCAACGGCGACGCCGCCAAUUUGAUGGGCUCG
(((((((.....)))))))...(.(((..----------((-----((((------((---.(((...((((.....(((....))).....))))....))).))).))))).))).). ( -34.20)
>DroSim_CAF1 5526 96 + 1
GAAAGUUUCACCAGCUUUCUCAGCGCCGA----------AU-----CGAU------UG---CCGGACAGCCGGAUAAGCCGAACGGCAGCAACGGCGACGCCGCCAAUUUGAUGGGCUCG
(((((((.....)))))))...(.(((..----------((-----((((------((---.(((...((((.....(((....))).....))))....))).))).))))).))).). ( -34.20)
>DroPer_CAF1 6379 114 + 1
GAAAGUUUCACCAGCUUUCUAAGUGCCAGCAGCUGUGGCAUCAUCCCGACUGAUAAUGCCACAGGGCAGCAAGAGAAAUUCAAUGGGAACAAUGGGGAUACC------CUGCUGGCCUCA
(((((((.....)))))))..((.(((((((((((((((((.(((......))).)))))))))..............((((.((....)).))))......------)))))))))).. ( -41.70)
>consensus
GAAAGUUUCACCAGCUUUCUCAGCGCCGA__________AU_____CGAU______UG___CCGGACAGCCGGAUAAGCCGAAUGGCAGCAACGGCGACGCCGCCAAUUUGAUGGGCUCG
(((((((.....)))))))....(((((.................................((((....))))....(((....))).....)))))....................... (-14.58 = -14.98 +   0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:56:42 2006