Locus 470

Sequence ID 2L_DroMel_CAF1
Location 1,370,542 – 1,370,650
Length 108
Max. P 0.716461
window754 window755

overview

Window 4

Location 1,370,542 – 1,370,650
Length 108
Sequences 6
Columns 108
Reading direction forward
Mean pairwise identity 90.19
Mean single sequence MFE -31.71
Consensus MFE -26.48
Energy contribution -27.12
Covariance contribution 0.64
Combinations/Pair 1.16
Mean z-score -1.95
Structure conservation index 0.83
SVM decision value 0.39
SVM RNA-class probability 0.716461
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1370542 108 + 22407834
GGAAGGGCUGCCCAGGAUAAGCCCGAAAACGUAAUGAAAAUGAGAUAAAAAUUAUUGCAACGUAAAUCAGGCGCUCUUGAGGCGCCCAGCUGGGAAUAUUCUUGGAGA
....((((.((((((((...(((.((..((((..((..(((((........))))).))))))...)).)))..))))).)))))))..(..(((....)))..)... ( -33.40)
>DroSec_CAF1 2196 108 + 1
GGAAGGGCUGCCCAGGAUAAGCCCGAAAACGUAAUGAAAAUGAGAUGAAAAUUAUUGCAACGUAAAUCAGGCGCUCCUUCGGCGCCCAGCUGGGAAAAUCCUUGGAGA
....((((.(((.((((...(((.((..((((..((..(((((........))))).))))))...)).)))..))))..)))))))..(..((......))..)... ( -30.80)
>DroSim_CAF1 2181 108 + 1
GGAAGGGCUGCCCAGGAUAAGCCCGAAAACGUAAUGAAAAUGAGAUGAAAAUUAUUGCAACGUAAAUCAGGCGCUCCUGCGGCGCCCAGCUGGGAAAAUCCUUGGAGA
....((((.((((((((...(((.((..((((..((..(((((........))))).))))))...)).)))..))))).)))))))..(..((......))..)... ( -35.10)
>DroEre_CAF1 2062 107 + 1
GGAAG-GCUGCCCAGGAUAAGCCCGAAAACGUAAUGAAAAUGAGAUGAAAAUUAUUGCAACGUAAAUCAGGCGCUCCUGAGGCGCCCAGCUGGGAAAAUCCUUGGAUG
....(-((.((((((((...(((.((..((((..((..(((((........))))).))))))...)).)))..))))).))))))...(..((......))..)... ( -30.90)
>DroYak_CAF1 2092 108 + 1
GGAAGGGCUGCCCAGGAUAAGCUCGAAAACGUAAUGAAAAUGAGAUGAAAAUUAUUGCAACGUAAAUCAGGCGCUCCUGAGGCGCCCAGUUGGGAAAAUCCUUGGAGA
....((((.((((((((...((..((..((((..((..(((((........))))).))))))...))..))..))))).)))))))....(((.....)))...... ( -32.00)
>DroAna_CAF1 2582 99 + 1
GCUCCGGC-----CGGAUAAGCCAGAGAACGUAAUGAAAAUGAGAUGAAAAUUAUUGCAACGUAAAUCAGGCGCUCCUGAGGCGCCCAGCUGGGAAUCCCCCGG----
...((((.-----.((((...((((.....(((((((..............)))))))...........((((((.....))))))...))))..)))).))))---- ( -28.04)
>consensus
GGAAGGGCUGCCCAGGAUAAGCCCGAAAACGUAAUGAAAAUGAGAUGAAAAUUAUUGCAACGUAAAUCAGGCGCUCCUGAGGCGCCCAGCUGGGAAAAUCCUUGGAGA
....((((.((((((((...(((.((..((((..((..(((((........))))).))))))...)).)))..))))).)))))))..(.(((.....))).).... (-26.48 = -27.12 +   0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

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Window 5

Location 1,370,542 – 1,370,650
Length 108
Sequences 6
Columns 108
Reading direction reverse
Mean pairwise identity 90.19
Mean single sequence MFE -30.83
Consensus MFE -24.93
Energy contribution -26.93
Covariance contribution 2.00
Combinations/Pair 1.00
Mean z-score -2.26
Structure conservation index 0.81
SVM decision value 0.31
SVM RNA-class probability 0.683004
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1370542 108 - 22407834
UCUCCAAGAAUAUUCCCAGCUGGGCGCCUCAAGAGCGCCUGAUUUACGUUGCAAUAAUUUUUAUCUCAUUUUCAUUACGUUUUCGGGCUUAUCCUGGGCAGCCCUUCC
.....................(((((((.((.((..((((((...((((...........................))))..))))))...)).))))).)))).... ( -27.83)
>DroSec_CAF1 2196 108 - 1
UCUCCAAGGAUUUUCCCAGCUGGGCGCCGAAGGAGCGCCUGAUUUACGUUGCAAUAAUUUUCAUCUCAUUUUCAUUACGUUUUCGGGCUUAUCCUGGGCAGCCCUUCC
.......((......))....(((((((..((((..((((((...((((...........................))))..))))))...)))).))).)))).... ( -32.43)
>DroSim_CAF1 2181 108 - 1
UCUCCAAGGAUUUUCCCAGCUGGGCGCCGCAGGAGCGCCUGAUUUACGUUGCAAUAAUUUUCAUCUCAUUUUCAUUACGUUUUCGGGCUUAUCCUGGGCAGCCCUUCC
.......((......))....(((((((.(((((..((((((...((((...........................))))..))))))...)))))))).)))).... ( -35.63)
>DroEre_CAF1 2062 107 - 1
CAUCCAAGGAUUUUCCCAGCUGGGCGCCUCAGGAGCGCCUGAUUUACGUUGCAAUAAUUUUCAUCUCAUUUUCAUUACGUUUUCGGGCUUAUCCUGGGCAGC-CUUCC
.......((......))....(((((((.(((((..((((((...((((...........................))))..))))))...)))))))).))-))... ( -33.03)
>DroYak_CAF1 2092 108 - 1
UCUCCAAGGAUUUUCCCAACUGGGCGCCUCAGGAGCGCCUGAUUUACGUUGCAAUAAUUUUCAUCUCAUUUUCAUUACGUUUUCGAGCUUAUCCUGGGCAGCCCUUCC
.......((......))....(((((((.(((((..((.(((...((((...........................))))..))).))...)))))))).)))).... ( -29.13)
>DroAna_CAF1 2582 99 - 1
----CCGGGGGAUUCCCAGCUGGGCGCCUCAGGAGCGCCUGAUUUACGUUGCAAUAAUUUUCAUCUCAUUUUCAUUACGUUCUCUGGCUUAUCCG-----GCCGGAGC
----.(((((....)))....(((((((....).))))))......)).................................((((((((.....)-----))))))). ( -26.90)
>consensus
UCUCCAAGGAUUUUCCCAGCUGGGCGCCUCAGGAGCGCCUGAUUUACGUUGCAAUAAUUUUCAUCUCAUUUUCAUUACGUUUUCGGGCUUAUCCUGGGCAGCCCUUCC
.......((......))....(((((((.(((((..((((((...((((...........................))))..))))))...)))))))).)))).... (-24.93 = -26.93 +   2.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:36:56 2006