Locus 3942

Sequence ID 3L_DroMel_CAF1
Location 11,431,306 – 11,431,425
Length 119
Max. P 0.629867
window6137

overview

Window 7

Location 11,431,306 – 11,431,425
Length 119
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 80.76
Mean single sequence MFE -47.20
Consensus MFE -25.77
Energy contribution -25.72
Covariance contribution -0.05
Combinations/Pair 1.23
Mean z-score -2.13
Structure conservation index 0.55
SVM decision value 0.20
SVM RNA-class probability 0.629867
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11431306 119 + 23771897
CAGGCAAUCGAAACCCACAUAGCCCAACUUAUAGCUGGCCACAGCAUUGGCGAAGUCCACGGCUUCGGCCAAUC-GCCUUUGCCGCACAAAAGCGGCAUAAAUGAAGCCCGCCGUGAAGC
...............(((...............((((....))))...((((..(....)(((((((((.....-)))..((((((......)))))).....))))))))))))).... ( -40.00)
>DroPse_CAF1 189444 119 + 1
GAUGUCGUCGAAGCCGACGCUGGCGAUCUUGUGGCUGGCCACGAGGUUGGCAAAGUCCACGGCCCCGCUCAGGCCGCGCCUG-CGCACGAAGGUGGCGUAGAUGAAGCCGGCCGUGAAGC
((((.(((((....))))))((.(((((((((((....))))))))))).))..)))(((((((.......(((..((.(((-(((((....)).)))))).))..)))))))))).... ( -56.21)
>DroSec_CAF1 150818 119 + 1
AAGGCAAUCGAAACCCACGUAGCCCAACUUAUAGCUGGCCACGGCAUUGGCGAAGUCCACGGCUUCGGCCAAUC-GUCUUUGCCGCACAAAAGCGGCAUAAAUGAAUCCCGCCGUGAAGC
..(((...((.......))..))).........(((...((((((.((((((((((.....))))).)))))((-((...((((((......))))))...)))).....)))))).))) ( -44.40)
>DroEre_CAF1 158595 119 + 1
CAGGCAGUCGAACCCCACAUAGCCCAACUUGAAGCUGGCCACGGCAUUGGCAAAGUCCACGGCCUCGGCCAACC-GCCUUUGCCGCACAAAGGCGGCAUAAAUAAAGCCCGCCGUGAAGC
..(((................))).........(((...((((((...(((.........(((....)))..((-(((((((.....)))))))))..........))).)))))).))) ( -41.09)
>DroYak_CAF1 149487 119 + 1
CAGGCAAUCGAAGCCCACAUAGCCCAGCUUAUAGCUGGCCACGGCAUUGGCAAAGUCUACGGCUUCGGCCAGUC-GCCUUUGCCGCACAAAAGCGGCGUAUAUGAAGCCCGCCGUAAAGC
..(((.......)))......(.(((((.....))))).)(((((...(((((((.(.(((((....))).)).-).)))))))((......))(((.........))).)))))..... ( -45.30)
>DroPer_CAF1 208245 119 + 1
GAUGUCGUCGAAGCCGACGCUGGCGAUCUUGUGGCUGGCCACGAGGUUGGCAAAGUCCACGGCCCCGCUCAGGCCGCGCCUG-CGCACGAAGGUGGCGUAGAUGAAGCCGGCCGUGAAGC
((((.(((((....))))))((.(((((((((((....))))))))))).))..)))(((((((.......(((..((.(((-(((((....)).)))))).))..)))))))))).... ( -56.21)
>consensus
CAGGCAAUCGAAGCCCACAUAGCCCAACUUAUAGCUGGCCACGGCAUUGGCAAAGUCCACGGCCUCGGCCAAUC_GCCUUUGCCGCACAAAAGCGGCAUAAAUGAAGCCCGCCGUGAAGC
.................................(((.((((......))))......((((((...(((......)))..((((((......))))))............)))))).))) (-25.77 = -25.72 +  -0.05)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:10:33 2006