Locus 1306

Sequence ID X_DroMel_CAF1
Location 3,895,445 – 3,895,540
Length 95
Max. P 0.955967
window2088

overview

Window 8

Location 3,895,445 – 3,895,540
Length 95
Sequences 5
Columns 101
Reading direction forward
Mean pairwise identity 89.43
Mean single sequence MFE -29.44
Consensus MFE -21.29
Energy contribution -20.73
Covariance contribution -0.56
Combinations/Pair 1.22
Mean z-score -3.03
Structure conservation index 0.72
SVM decision value 1.46
SVM RNA-class probability 0.955967
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3895445 95 + 22224390
UAAAUGUGUUGGGAG----UCACCG--AUGGGAAAAGCGCGGGGAAAUGGUAGCUGCAAAUGCGGGAAAAGCGCCAAAAGCUGGGAAACCGGCAGCGGGAA
....(.((((((...----...)))--))).).....(((((.(...(..(..((((....)))).)..).).))....(((((....))))).))).... ( -28.40)
>DroSec_CAF1 12805 96 + 1
UAAAUGUGUUG-GAG----UCACCGUGUUGGGAAAAGCACGGGGAAAUGGUAGCUGCAAAUGCGGGAAAAGCGCCAAAAGCUGGGAAACCGGCAGCGGGAA
.....(((((.-...----((.(((((((......)))))))...........((((....))))))..))))).....(((((....)))))........ ( -32.50)
>DroSim_CAF1 9934 96 + 1
UAAAUGUGUUG-GAG----UCACCGUGUUGGGAAAAGCGCGGGGAAAUGUUAGCUGCAAAUGCGGGAAAAGCGCCAAAAGCUGGGAAACCGGCAGCGGGAA
.....(((((.-...----((.(((((((......)))))))...........((((....))))))..))))).....(((((....)))))........ ( -32.10)
>DroEre_CAF1 14926 94 + 1
UAAAUGUGCUG-GAG----UCGUCG--GUGUGAAAGGCGUGGGGAAAUGGUAGCUGCAAAUGCGGGAAAAGCGGAAAAAGCUGGGAAACCGGCAGCGGGUA
......(((((-...----((.(((--((.......)).))).))..))))).((((...(((.......)))......(((((....))))).))))... ( -25.10)
>DroYak_CAF1 15314 98 + 1
UAAAUGAGCUG-GAGGACCUCACCG--GUGAGGAAAGCGUGGGGAAAUGGUAGCUGCAAAUGCGGGAAAAGCGGAAAAAGCUGGGAAACCGGCAGCGGGAA
......(((((-..(..((((((.(--.(......).)))))))...)..)))))((...(((.......)))......(((((....))))).))..... ( -29.10)
>consensus
UAAAUGUGUUG_GAG____UCACCG__GUGGGAAAAGCGCGGGGAAAUGGUAGCUGCAAAUGCGGGAAAAGCGCCAAAAGCUGGGAAACCGGCAGCGGGAA
....((((((.........................))))))............((((...(((.......)))......(((((....))))).))))... (-21.29 = -20.73 +  -0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:06:11 2006