Locus 7551

Sequence ID 3L_DroMel_CAF1
Location 20,277,817 – 20,277,931
Length 114
Max. P 0.524332
window12272

overview

Window 2

Location 20,277,817 – 20,277,931
Length 114
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 83.76
Mean single sequence MFE -35.15
Consensus MFE -25.40
Energy contribution -26.65
Covariance contribution 1.25
Combinations/Pair 1.19
Mean z-score -1.47
Structure conservation index 0.72
SVM decision value -0.02
SVM RNA-class probability 0.524332
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20277817 114 - 23771897
UAUGGAAC------UUGAUGUUAUUUGUUCCAGAAGAUUUCUGCGGAACAGCAUUAGGCAAGCCCUCUUCAUCUACGACGAUCCUGGCGAAUUGGUGGUAGAGGGAGAGGUACGCACCUC
...((..(------(((((((....((((((...((....))..))))))))))))))...(((((((((.(((((.((.(...........).)).))))).)))))))...)).)).. ( -36.50)
>DroSec_CAF1 16629 114 - 1
UAUGGAAC------UUGAUGUUAUUUGUUCCAGAAGAUUUCUGCGGAACAGCAUCAGGCAAACCCUCUUCAUCUACGACGAUCCGGGCGAAUUGGUGGUAGAAGGAGAGGUACACACCUC
...((..(------(((((((....((((((...((....))..)))))))))))))).....(((((((.(((((.((.(...........).)).))))).)))))))......)).. ( -37.50)
>DroSim_CAF1 16617 114 - 1
UAUGGAAC------UUGAUGUUAUUUGUUCCAGAAGAUUUCUGCGGAACAGCAUCAGGCAAACCCUCUUCAUCUACGACGAUCCGGGCGAAUUGGUGGUAGAAGGAGAGGUACACACCUC
...((..(------(((((((....((((((...((....))..)))))))))))))).....(((((((.(((((.((.(...........).)).))))).)))))))......)).. ( -37.50)
>DroYak_CAF1 8623 111 - 1
UAUGGAACUGAGCCUUGAUGUUCUUUUUGCCAGAAGAUUUUCGCGGCACUGCA---------CCCUCUUCAUUUACGACGAUCCGGGCGUAAUGGUCGCAGUUCGAGAGGAACACUUUUC
....((((((.(((.(((...(((((......)))))...))).)))..(((.---------(((((.((......)).))...))).))).......))))))((((((....)))))) ( -29.10)
>consensus
UAUGGAAC______UUGAUGUUAUUUGUUCCAGAAGAUUUCUGCGGAACAGCAUCAGGCAAACCCUCUUCAUCUACGACGAUCCGGGCGAAUUGGUGGUAGAAGGAGAGGUACACACCUC
...((.........(((((((....((((((...((....))..)))))))))))))......(((((((.(((((.((.(...........).)).))))).)))))))......)).. (-25.40 = -26.65 +   1.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:50:02 2006