Locus 332

Sequence ID 3L_DroMel_CAF1
Location 957,499 – 957,603
Length 104
Max. P 0.999989
window497 window498

overview

Window 7

Location 957,499 – 957,603
Length 104
Sequences 4
Columns 109
Reading direction forward
Mean pairwise identity 70.24
Mean single sequence MFE -38.95
Consensus MFE -23.74
Energy contribution -24.55
Covariance contribution 0.81
Combinations/Pair 1.29
Mean z-score -3.99
Structure conservation index 0.61
SVM decision value 5.52
SVM RNA-class probability 0.999989
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 957499 104 + 23771897
GUCCUGCAUGGAGCUUGCAUUGUC--CUGCUCACGC--UGCACUCACGAUUGG-CAUUGGAUAUUCACAAGCGCCAUGCAAGACAUUCUCUUGACCCCCCCAGCCACAC
(((.(((((((.(((((...((((--(((((..((.--((....))))...))-))..)))))....))))).))))))).)))......................... ( -32.40)
>DroSec_CAF1 146 100 + 1
GUCCUGCAUGGAGCUUGCAUUAGUCGCAGCUGAAGC--UGCAUCCAUGAUUGG-CAUUGGAUAUUCAUAGGCGCCAUGCAGGACAUUCUCUUGACCCCGCC------CC
(((((((((((.(((((........(((((....))--)))(((((((.....-)).))))).....))))).))))))))))).................------.. ( -42.30)
>DroSim_CAF1 146 100 + 1
GUCCUGCAUGGAGCUUGCAUUGUCCGCAGCUGAAGC--UGCAUCCAUGAUUGG-CAUUGGAUAUUCACAAGCGCCAUGCAGGACAUGCUCUUGACCCCGCC------CC
(((((((((((.(((((...((((((((((....))--)))..(((....)))-....)))))....))))).))))))))))).................------.. ( -47.40)
>DroYak_CAF1 148 90 + 1
GUCCUGCAA-----------UGUC--CUGUGGCAGCAGUGCACCUAUGAUUGGGUAUACAGUUCCCACAAACGCCUUGCAGGACCCUCUGUUCACGUCAGU------CC
(((((((((-----------.((.--.(((((.(((.(((.(((((....))))).))).))).)))))...)).)))))))))...(((.......))).------.. ( -33.70)
>consensus
GUCCUGCAUGGAGCUUGCAUUGUC__CAGCUGAAGC__UGCACCCAUGAUUGG_CAUUGGAUAUUCACAAGCGCCAUGCAGGACAUUCUCUUGACCCCGCC______CC
(((((((((((.(((((...........((.........))..(((....)))..............))))).)))))))))))......................... (-23.74 = -24.55 +   0.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 957,499 – 957,603
Length 104
Sequences 4
Columns 109
Reading direction reverse
Mean pairwise identity 70.24
Mean single sequence MFE -38.56
Consensus MFE -24.51
Energy contribution -23.76
Covariance contribution -0.75
Combinations/Pair 1.41
Mean z-score -2.64
Structure conservation index 0.64
SVM decision value 4.11
SVM RNA-class probability 0.999801
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 957499 104 - 23771897
GUGUGGCUGGGGGGGUCAAGAGAAUGUCUUGCAUGGCGCUUGUGAAUAUCCAAUG-CCAAUCGUGAGUGCA--GCGUGAGCAG--GACAAUGCAAGCUCCAUGCAGGAC
...(((((.....))))).......(((((((((((.((((((.....(((..((-(....(....).)))--((....)).)--))....)))))).))))))))))) ( -42.50)
>DroSec_CAF1 146 100 - 1
GG------GGCGGGGUCAAGAGAAUGUCCUGCAUGGCGCCUAUGAAUAUCCAAUG-CCAAUCAUGGAUGCA--GCUUCAGCUGCGACUAAUGCAAGCUCCAUGCAGGAC
..------.................(((((((((((.((((((((..........-....)))))).((((--((....))))))..........)).))))))))))) ( -36.54)
>DroSim_CAF1 146 100 - 1
GG------GGCGGGGUCAAGAGCAUGUCCUGCAUGGCGCUUGUGAAUAUCCAAUG-CCAAUCAUGGAUGCA--GCUUCAGCUGCGGACAAUGCAAGCUCCAUGCAGGAC
..------.((..........))..(((((((((((.((((((.....(((....-(((....)))..(((--((....))))))))....)))))).))))))))))) ( -44.90)
>DroYak_CAF1 148 90 - 1
GG------ACUGACGUGAACAGAGGGUCCUGCAAGGCGUUUGUGGGAACUGUAUACCCAAUCAUAGGUGCACUGCUGCCACAG--GACA-----------UUGCAGGAC
..------.(((.......)))...(((((((((....(((((((.(.(.((.((((........)))).)).).).))))))--)...-----------))))))))) ( -30.30)
>consensus
GG______GGCGGGGUCAAGAGAAUGUCCUGCAUGGCGCUUGUGAAUAUCCAAUG_CCAAUCAUGGAUGCA__GCUUCAGCAG__GACAAUGCAAGCUCCAUGCAGGAC
.........................((((((((((((((((((((...............))))))))))...((....))..................)))))))))) (-24.51 = -23.76 +  -0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:39:28 2006