Locus 5288

Sequence ID X_DroMel_CAF1
Location 13,851,959 – 13,852,065
Length 106
Max. P 0.997631
window8558

overview

Window 8

Location 13,851,959 – 13,852,065
Length 106
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 90.05
Mean single sequence MFE -36.02
Consensus MFE -30.76
Energy contribution -30.44
Covariance contribution -0.32
Combinations/Pair 1.07
Mean z-score -2.48
Structure conservation index 0.85
SVM decision value 2.90
SVM RNA-class probability 0.997631
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13851959 106 - 22224390
GGUCCAAAA--------GGGGGGCUUAAA----GGGGAAUGGGGCUACCAUUCAUGGCUGAAGUCGGCUGAAUAAAGCAGUCAGCUACGAGUUGGCAAUACAUUUUCCGCCAA--AACAC
(((((....--------...)))))....----((..((((..((((..((((.(((((((.....(((......)))..))))))).))))))))....))))..)).....--..... ( -34.90)
>DroSec_CAF1 263 108 - 1
GGGCCAAAA--------GGGGGGCUUAGA----GGGGAAUGGGGCUACCAUUCAUGGCUGAAGUCGGCUGAAUAAAGCAGUCAGCUACGAGUUGGCAAUACAUUUUCCGCCAAAAAACAC
(((((....--------....))).....----((..((((..((((..((((.(((((((.....(((......)))..))))))).))))))))....))))..)).))......... ( -36.00)
>DroSim_CAF1 4871 106 - 1
GGGCCAAAA--------GGGGGGCUUGGA----GGGGAAUGGGGCUACCAUUCAUGGCUGAAGUCGGCUGAAUAAAGCAGUCAGCUACGAGUUGGCAAUACAUUUUCCGCCAA--AACAC
.((((....--------....))))(((.----((..((((..((((..((((.(((((((.....(((......)))..))))))).))))))))....))))..)).))).--..... ( -39.10)
>DroEre_CAF1 255 106 - 1
GGGUUAAAA--------AGGGGCAAUGGG----GGGGAAUGGGGCUACCAUUCAUGGCUGAAGUCGGCUGAAUAAAGCAGUCAGCUACGAGUUGGCAAUACAUUUUCCGCCAA--AACAC
.........--------........(((.----((..((((..((((..((((.(((((((.....(((......)))..))))))).))))))))....))))..)).))).--..... ( -36.20)
>DroYak_CAF1 2291 118 - 1
GGGCCAAAAAAAAAAAAAGGGGGAGGGGGGAAUGGGGAAUGGGGCUACCAUUCAUGGCUGAAGUCGGCUGAAUAAAGCAGUCAGCUACGAGUUGGCAAUACAUUUUCCGCCAA--AACAC
........................((((..((((..((((((.....))))))...((..(.((.((((((.........))))))))...)..))....))))..)).))..--..... ( -33.90)
>consensus
GGGCCAAAA________GGGGGGCUUGGA____GGGGAAUGGGGCUACCAUUCAUGGCUGAAGUCGGCUGAAUAAAGCAGUCAGCUACGAGUUGGCAAUACAUUUUCCGCCAA__AACAC
((.((.............)).............((..((((..((((..((((.(((((((.....(((......)))..))))))).))))))))....))))..)).))......... (-30.76 = -30.44 +  -0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:44:02 2006