Locus 6552

Sequence ID X_DroMel_CAF1
Location 16,400,484 – 16,400,604
Length 120
Max. P 0.597918
window10699

overview

Window 9

Location 16,400,484 – 16,400,604
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 93.94
Mean single sequence MFE -54.72
Consensus MFE -46.47
Energy contribution -46.58
Covariance contribution 0.11
Combinations/Pair 1.12
Mean z-score -1.60
Structure conservation index 0.85
SVM decision value 0.13
SVM RNA-class probability 0.597918
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16400484 120 - 22224390
AGAGCGAGGAGCCACUCUCCGACGACGAGGCGGCGCUGCGCAAGGAGGUGAUACGCAACAAGAUCCGUGCCAUUGGCAAGAUGGCGCGCGUCUUCUCCGUGCUGCGCGAGGAGUCCGAGU
...((..(((.((.(((((....)).)))...((((.((((..(((((((...)))...(((((.(((((((((.....))))))))).))))))))))))).))))..))..)))..)) ( -47.80)
>DroGri_CAF1 20080 120 - 1
AGAGCGAGGAGCCGCUCUCGGACGAUGAGGCGGCGUUGCGCAAGGAGGUCAUACGCAACAAGAUACGCGCCAUUGGCAAAAUGGCGCGCGUCUUCUCCGUGCUGCGCGAGGAGUCGGAGU
..........(((((.((((.....)))))))))((((((....(....)...))))))((((..(((((((((.....)))))))))..))))(((((.(((.(....).)))))))). ( -56.90)
>DroSec_CAF1 21397 120 - 1
AGAGCGAGGAGCCGCUCUCCGACGACGAGGCGGCGCUGCGCAAGGAGGUGAUCCGCAACAAGAUCCGUGCCAUCGGCAAGAUGGCGCGCGUCUUCUCCGUGCUGCGCGAGGAGUCCGAGU
...((..((((((((.(((.......)))))))).(((((((.(((.....)))(((..(((((.(((((((((.....))))))))).))))).....)))))))).))...)))..)) ( -54.00)
>DroYak_CAF1 18023 120 - 1
AGAGCGAGGAGCCGCUCUCCGACGACGAGGCGGCGCUGCGCAAGGAGGUGAUCCGCAACAAGAUCCGUGCCAUCGGCAAGAUGGCGCGCGUCUUCUCCGUGCUGCGCGAGGAGUCCGAGU
...((..((((((((.(((.......)))))))).(((((((.(((.....)))(((..(((((.(((((((((.....))))))))).))))).....)))))))).))...)))..)) ( -54.00)
>DroMoj_CAF1 19759 119 - 1
-GAGCGAGGAGCCGCUGUCGGACGACGAGGCGGCGCUGCGCAAGGAGGUCAUCCGCAACAAGAUACGCGCCAUUGGCAAAAUGGCGCGCGUCUUCUCAGUGCUGCGCGAGGAGUCCGAGU
-.((((......)))).((((((..(..((((((((((.((..(((.....)))))...((((..(((((((((.....)))))))))..))))..))))))))).)..)..)))))).. ( -58.40)
>DroAna_CAF1 18850 120 - 1
AGAGCGAGGAGCCGCUGUCCGACGACGAGGCGGCGCUGCGCAAGGAGGUCAUCCGGAACAAGAUCCGGGCCAUCGGCAAGAUGGCGCGCGUCUUCUCCGUGCUCCGCGAGGAGUCCGAGU
.....((((((((((((((....)))..))))))...((((...........(((((......)))))((((((.....)))))))))).)))))..((..((((....))))..))... ( -57.20)
>consensus
AGAGCGAGGAGCCGCUCUCCGACGACGAGGCGGCGCUGCGCAAGGAGGUCAUCCGCAACAAGAUCCGUGCCAUCGGCAAGAUGGCGCGCGUCUUCUCCGUGCUGCGCGAGGAGUCCGAGU
.(((((......)))))((.(((..(....((.(((.((((..((((((........))(((((.(((((((((.....))))))))).))))))))))))).))))).)..))).)).. (-46.47 = -46.58 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:16:40 2006