Locus 4033

Sequence ID 3L_DroMel_CAF1
Location 11,773,606 – 11,773,723
Length 117
Max. P 0.506565
window6281

overview

Window 1

Location 11,773,606 – 11,773,723
Length 117
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 79.38
Mean single sequence MFE -42.57
Consensus MFE -23.37
Energy contribution -22.93
Covariance contribution -0.44
Combinations/Pair 1.41
Mean z-score -1.74
Structure conservation index 0.55
SVM decision value -0.05
SVM RNA-class probability 0.506565
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11773606 117 + 23771897
CAGGGCAUUGUAUUUCCUAGCCAGUUCAACGAUUCGGGCCAGUGGUGCGAUGUUGCCAUCCAUGGAAAAAACACCAUCGGUGGCGAUCAGCUUGAGGCGAGCAUCGCUGGCC---UUUAG
...(((.............))).............(((((((((((((...(((((((((.((((........)))).)))))))))..((.....))..))))))))))))---).... ( -46.92)
>DroVir_CAF1 9313 117 + 1
CAGUGCGUCAUAUUUCUUGGCCAGCUCGACAAUGCGUGCCAGCGGCGCUAUAUUGCCAUCCAUGGAGAAGACGCCAUCGGUGGCAAUCAGCUUGAGCCGGGCAUCAGUCGAA---CGCAG
...(((((((.......))))..(.(((((..((.(((((..(((((((..(((((((((.((((........)))).))))))))).)))....)))))))))))))))).---)))). ( -44.10)
>DroGri_CAF1 9024 117 + 1
GAGUGCAUCAUAUUUCUUGGCCAGCUCGACAAUGCGAGCCAACGGCGCUAUAUUGCCAUCCAUGGAGAAGACACCAUCGGUGGCAAUCAGCUUGAGACGGGCAUCGCUCGAC---CGCAG
...(((........((((.(((.(((((......)))))....)))(((..(((((((((.((((........)))).))))))))).)))..))))(((((...)))))..---.))). ( -41.80)
>DroWil_CAF1 10153 120 + 1
UAAGGCAUUGUAUUUCUUGGCCAAUUCGACAAUUCGUGCCAAUGGAGCUAUAUUGCCAUCCAUGGAGAAUACUCCAUCGGUGGCAAUCAAUUUUAAUCUCGAAUCACUGUCAUUUUUCAG
...((((.((...((((((((.....(((....))).)))))(((((....(((((((((.((((((....)))))).)))))))))...))))).....))).)).))))......... ( -33.70)
>DroMoj_CAF1 9390 117 + 1
CAGGGCAUUGUAUUUCUUGGCCAGCUCGACGAUGCGUGCCAGCGGCGCUAUGUUGCCGUCCAUGGAGAAGACUCCAUCUGUAGCGAUGAGCUUGAGCCGGGCAUCGGACGAG---CGCAG
...(((...(.....)...))).(((((.((((((((....))((((((.((((((..(..((((((....))))))..)..)))))))))....)))..))))))..))))---).... ( -43.30)
>DroAna_CAF1 9151 117 + 1
AAGAGCAUUGUACUUCUUGGCCAGUUCCACGAUGCGGGCCAGGGGAGCAAUGUUGCCGUCCAUGGAGAAGACACCAUCGGUGGCAAUCAGCUUGAGGCGGGCAUCACUGGCC---UUCAG
..(((((((((.((.(((((((.((........)).))))))))).)))))(((((((.((((((........)))).)))))))))..))))(((((.((.....)).)))---))... ( -45.60)
>consensus
CAGGGCAUUGUAUUUCUUGGCCAGCUCGACAAUGCGUGCCAGCGGCGCUAUAUUGCCAUCCAUGGAGAAGACACCAUCGGUGGCAAUCAGCUUGAGCCGGGCAUCACUCGAC___CGCAG
................(((((..((........))..)))))..(((....(((((((((.((((........)))).)))))))))..((((.....)))).............))).. (-23.37 = -22.93 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:12:53 2006