Locus 5094

Sequence ID 2R_DroMel_CAF1
Location 16,555,119 – 16,555,218
Length 99
Max. P 0.844452
window8144 window8145

overview

Window 4

Location 16,555,119 – 16,555,218
Length 99
Sequences 5
Columns 105
Reading direction forward
Mean pairwise identity 92.02
Mean single sequence MFE -29.36
Consensus MFE -24.62
Energy contribution -24.62
Covariance contribution -0.00
Combinations/Pair 1.07
Mean z-score -1.55
Structure conservation index 0.84
SVM decision value 0.76
SVM RNA-class probability 0.844452
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16555119 99 + 20766785
UUCUGCC------UCUGUUUCUGCAGAACACGACGAGGGAGUUGUUCGAUUCGUGCGUGACAGAAAGAGUUGUGCUGAGUUGAGUAGAUUUCGAGUUGAGUGGUU
....(((------(((((....)))))((.((((..(..(.((((((((((((.(((..((.......))..))))))))))))))).)..)..)))).))))). ( -31.80)
>DroSec_CAF1 21709 97 + 1
UUCUGUC------UCUGCUUCUGCAGAA--CGACGAGGGAGUUGUUCGAUUCGUGCGUGACAGAAAGAGUUGUGCUGAGUUGAGUAGAUUUCGAGUUGAGUGGUU
.......------(((((....))))).--((((..(..(.((((((((((((.(((..((.......))..))))))))))))))).)..)..))))....... ( -31.00)
>DroSim_CAF1 24883 97 + 1
UUCUGUC------UCUGUUUCUGCAGAA--CGACGAGGGAGUUGUUCGAUUCGUGCGUGACAGCAAGAGUUGUGCUGAGUUGAGUAGAUUUCGAGUUGAGUGAUU
(((...(------((.(..(((((.(((--((((......)))))))((((((.(((..((.......))..)))))))))..)))))..).)))..)))..... ( -30.40)
>DroEre_CAF1 21826 97 + 1
UUCUGUC------UCUGUUUCUGCAGAA--AGACGAGGGAGUUGUUCGCUUCGUGCGUGACAGAAAGAGUUGUGUUGAGUUGAGUAGAUUUCGAGCUGAGUGGAU
(((((((------(((((....))))).--..((((.(((((.....))))).).)))))))))).........((.(((((((.....))).)))).))..... ( -23.70)
>DroYak_CAF1 22964 103 + 1
UUCUGUCGCUGUUUCUGUUUCUGCAGAA--AGACGAGGGAGUUCUUCGAUUCGUGCGUGACAGAAAGAGUUGUGUUGAGUUGAGUAGAUUUCGAGCUGAGUGGAU
.(((.(((.(.(((((((....))))))--).)))).)))(((((((((((((.(((..((.......))..))))))))))))..(....)))))......... ( -29.90)
>consensus
UUCUGUC______UCUGUUUCUGCAGAA__CGACGAGGGAGUUGUUCGAUUCGUGCGUGACAGAAAGAGUUGUGCUGAGUUGAGUAGAUUUCGAGUUGAGUGGUU
(((.(((......(((((....)))))....))))))((((((..((((((((.(((..((.......))..)))))))))))...))))))............. (-24.62 = -24.62 +  -0.00)

alignment

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secondary structure

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dotplot

Postscript

Window 5

Location 16,555,119 – 16,555,218
Length 99
Sequences 5
Columns 105
Reading direction reverse
Mean pairwise identity 92.02
Mean single sequence MFE -17.02
Consensus MFE -12.26
Energy contribution -12.30
Covariance contribution 0.04
Combinations/Pair 1.06
Mean z-score -1.98
Structure conservation index 0.72
SVM decision value 0.01
SVM RNA-class probability 0.540161
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16555119 99 - 20766785
AACCACUCAACUCGAAAUCUACUCAACUCAGCACAACUCUUUCUGUCACGCACGAAUCGAACAACUCCCUCGUCGUGUUCUGCAGAAACAGA------GGCAGAA
..............................((....((.(((((((...((((((..(((.........)))))))))...))))))).)).------.)).... ( -18.50)
>DroSec_CAF1 21709 97 - 1
AACCACUCAACUCGAAAUCUACUCAACUCAGCACAACUCUUUCUGUCACGCACGAAUCGAACAACUCCCUCGUCG--UUCUGCAGAAGCAGA------GACAGAA
........................................((((((((((.((((...((.....))..))))))--)(((((....)))))------))))))) ( -19.90)
>DroSim_CAF1 24883 97 - 1
AAUCACUCAACUCGAAAUCUACUCAACUCAGCACAACUCUUGCUGUCACGCACGAAUCGAACAACUCCCUCGUCG--UUCUGCAGAAACAGA------GACAGAA
..........(((....(((........(((((.......)))))....(((.(((((((.........)))..)--)))))))))....))------)...... ( -15.40)
>DroEre_CAF1 21826 97 - 1
AUCCACUCAGCUCGAAAUCUACUCAACUCAACACAACUCUUUCUGUCACGCACGAAGCGAACAACUCCCUCGUCU--UUCUGCAGAAACAGA------GACAGAA
....................................((.(((((((..((((.(((((((.........))).))--)).))).)..)))))------)).)).. ( -16.20)
>DroYak_CAF1 22964 103 - 1
AUCCACUCAGCUCGAAAUCUACUCAACUCAACACAACUCUUUCUGUCACGCACGAAUCGAAGAACUCCCUCGUCU--UUCUGCAGAAACAGAAACAGCGACAGAA
........................................(((((((.((.((((...((.....))..)))))(--(((((......))))))..).))))))) ( -15.10)
>consensus
AACCACUCAACUCGAAAUCUACUCAACUCAGCACAACUCUUUCUGUCACGCACGAAUCGAACAACUCCCUCGUCG__UUCUGCAGAAACAGA______GACAGAA
........................................(((((((..(.((((...((.....))..)))))....((((......))))......))))))) (-12.26 = -12.30 +   0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:36:22 2006