Locus 3708

Sequence ID 2L_DroMel_CAF1
Location 10,807,687 – 10,807,781
Length 94
Max. P 0.500000
window5843

overview

Window 3

Location 10,807,687 – 10,807,781
Length 94
Sequences 5
Columns 95
Reading direction forward
Mean pairwise identity 83.85
Mean single sequence MFE -25.04
Consensus MFE -15.83
Energy contribution -17.56
Covariance contribution 1.73
Combinations/Pair 1.07
Mean z-score -1.76
Structure conservation index 0.63
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10807687 94 + 22407834
CAUCCAGUGCAGCUCUU-UUGGGUGGUCAGCCCAGAAGUAUGCAGGCCAGUUUUGGAAACAGUCCCCAAGAACACUCAAAUUAAAAUGAGCCUGU
........(((...(((-((((((.....)))))))))..)))(((((((..(((....)))..)....((....)).........)).)))).. ( -27.10)
>DroSec_CAF1 41455 93 + 1
CAUACAGUGCAACUCUU-UUGGGUGG-CAGCCCAGAAGUAUGCAGGCCAGUUUUGGAAACAGUCCCCAAGAACACUCAAAUUAAAAUGGGCCUAU
........(((...(((-((((((..-..)))))))))..)))(((((.(..(((....)))..)....((....))...........))))).. ( -28.80)
>DroSim_CAF1 46816 94 + 1
CAUUCAGUGCAGCCCUUUUUGGGUGG-CAGCCCAGAAGUAUGCAGGCCAGUUUUGGAAACAGUCCCCAAGAACACUCAAAUUAAAAUGGGCCUAU
........(((....(((((((((..-..)))))))))..)))(((((.(..(((....)))..)....((....))...........))))).. ( -26.30)
>DroEre_CAF1 42359 72 + 1
CUUCCAGUGCAC----------------------CAAGUAUGCGGGCCAGUUUUGGAAACAGUCCCC-AGAACACUCAAAUUAAAAUGGGCCUGU
......((((..----------------------...))))(((((((.(((((((.........))-)))))...((........))))))))) ( -19.70)
>DroYak_CAF1 42643 90 + 1
CAUCCAGUGCACCUCUU-UUGG-AGG-CAGCCC-CAAGUAUGCAGGCCAGUUUUGAAAACAGUCCCC-AGAACACUCAAAUUAAAAUGGGCCUGC
........((.((((..-...)-)))-..))..-.......(((((((.(((((((....(((....-.....)))....))))))).))))))) ( -23.30)
>consensus
CAUCCAGUGCACCUCUU_UUGGGUGG_CAGCCCAGAAGUAUGCAGGCCAGUUUUGGAAACAGUCCCCAAGAACACUCAAAUUAAAAUGGGCCUGU
........(((...(((.((((((.....)))))))))..)))(((((.(((((((....(((..........)))....))))))).))))).. (-15.83 = -17.56 +   1.73)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:59:07 2006