Locus 4395

Sequence ID 3R_DroMel_CAF1
Location 11,623,838 – 11,623,949
Length 111
Max. P 0.529293
window7180

overview

Window 0

Location 11,623,838 – 11,623,949
Length 111
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 77.13
Mean single sequence MFE -48.00
Consensus MFE -28.70
Energy contribution -28.57
Covariance contribution -0.13
Combinations/Pair 1.52
Mean z-score -1.40
Structure conservation index 0.60
SVM decision value -0.01
SVM RNA-class probability 0.529293
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11623838 111 + 27905053
UUGCCCGCCAGCCGGACUGGCAGUACCGCGUCAUGCGCAGCCAGCCCAAGGCCAUUGUCAAGGCCAUGUGGAAGGCGGAGCGCGAGACGAUAGCCUCA---GGCG---GUGU---CGGCG
..(((.(((((.....))))).((((((((((.(((((.(((..((((.((((........)))).)).))..)))...))))).)))((.....)).---.)))---))).---)))). ( -52.90)
>DroVir_CAF1 6886 114 + 1
UUGCCCGUCAGCCGGAUUGGCAAUAUCGCGUUAUGCGCAGCCAGGCCAAGGCAAUUGUUAAGAGCGUCUGGAAGGCUGAGCGCGAGGCAGUUGCACUA---AGUGGCGGCGG---CGGCG
..(((.(((.(((...(((((......(((.....))).)))))(((((((((((((((....((((..((....))..))))..))))))))).)).---..)))))))))---)))). ( -45.50)
>DroGri_CAF1 2702 111 + 1
UUAGCCGUCAGCCGGAUUGGCAAUAUCGGGUGAUGCGCAGCCAGGCCAAGGCGAUUGUGAGGGGCGUGUGGAAGGCGGAACGCGAAGCGAUCGCUUCG---AAUG---GCGG---CGGCG
...((((((.(((((.(((((..((((....))))....))))).)).((((((((((......(((((..........)))))..))))))))))..---...)---))))---)))). ( -45.00)
>DroWil_CAF1 10083 114 + 1
UCGCCCGACAGCCGGAUUGGCAAUAUCGUGUCAUGCGUUGCCAACCAAAGGCCAUUGUUAAGAGCAUGUGGAAGGCAGAACGCGAGAUGUUGGCCAGAAUUGGAG---GUGG---UGGCA
..((((.((..((((.(((((((((((......(((((((((..(((...(((........).))...)))..))))..))))).)))))).)))))..))))..---)).)---.))). ( -41.20)
>DroMoj_CAF1 6922 111 + 1
UUAGCCGUCAGCCUGAUUGGCAAUAUCGUGUAAUGCGUAGCCAGGCCAAGGCGAUUGUCAAGAGCGUCUGGAAGGCUGAGCGCGAGGCGAUUGCCUCU---GCUG---GCGG---UGGCA
...(((((((((..((..((((..(((((.(..(((.(((((...(((.((((.((.....)).)))))))..))))).)))..).))))))))))).---))))---))))---).... ( -48.20)
>DroAna_CAF1 4995 114 + 1
UUGCCCGCCAGCCGGACUGGCAGUACCGAGUGAUGCGGAGCCAGGCCAAGGCCAUUGCCAAGAGCGUGUGGAAGGCGGAGCGCGAGGCGCUGGCCUCC---GGCG---GCGGCACUGGCG
.((((.(((.(((((((((((....((((....).))).))))).....(((((.((((....((((.(.(....).).))))..)))).))))))))---))))---))))))...... ( -55.20)
>consensus
UUGCCCGUCAGCCGGAUUGGCAAUAUCGCGUCAUGCGCAGCCAGGCCAAGGCCAUUGUCAAGAGCGUGUGGAAGGCGGAGCGCGAGGCGAUGGCCUCA___GGUG___GCGG___CGGCG
..........(((((.(((((.....(((.....)))..))))).))..((((((((((....((((............))))..)))))))))).....................))). (-28.70 = -28.57 +  -0.13)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:28:04 2006