Locus 858

Sequence ID 2L_DroMel_CAF1
Location 2,445,579 – 2,445,673
Length 94
Max. P 0.823641
window1394 window1395

overview

Window 4

Location 2,445,579 – 2,445,673
Length 94
Sequences 6
Columns 99
Reading direction forward
Mean pairwise identity 80.84
Mean single sequence MFE -21.03
Consensus MFE -13.65
Energy contribution -14.60
Covariance contribution 0.95
Combinations/Pair 1.25
Mean z-score -2.09
Structure conservation index 0.65
SVM decision value 0.69
SVM RNA-class probability 0.823641
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2445579 94 + 22407834
CUAAGUAC--C-CAUGCAUAAAAAACCAACAAUGGAUAUUAGGCAACAU--UUAUGUAAGUGGCGAUUAUUGCGCCAUUACGAGUAGUUUAUGUGGUAG
.....(((--(-((((((((((...(((....)))......(....).)--)))))))(((((((.......)))))))............)).)))). ( -23.10)
>DroPse_CAF1 26622 93 + 1
--AAGCAUAAA-GAUGCAUAAA-AAUCAGCCAUAAAUAUGAGGCAAUAU--UUAUGUAAGUGGCGAUUAUUGCGCCAUUACGAUUAGUUAAUGUAUUAA
--.........-(((((((.((-((((...(((((((((......))))--)))))..(((((((.......)))))))..))))..)).))))))).. ( -22.60)
>DroEre_CAF1 26640 93 + 1
CUAAGUGC--C-GAUGCAUAAA-AUUCAACAAUGGAUAUUAGGCAACAU--UUAUGUAAGUGGCGAUUAUUGCGCCAUUACGAGUAGUUUAUGUGGUAG
.....(((--(-(.((((((((-(((((....)))))....(....).)--)))))))(((((((.......)))))))..............))))). ( -22.50)
>DroWil_CAF1 39033 96 + 1
UGAAAUAC--CAAAUACAUAAA-AAUCAACAAUAAAUAUUAAGCAACAUUUUUAUGUAAGUGGCGAUUAUUGCGCCAUUACAAUUAGUUUAUGUGUUAA
........--..((((((((((-......................((((....)))).(((((((.......)))))))........)))))))))).. ( -18.40)
>DroAna_CAF1 31971 92 + 1
CAAAGUGU--G-GCUACAUAA--AAUCGACAAUAAAUAUUGAGCAACAU--CUAUGUAAGUGGCGAUUAUUGCGCCAUUACGAUCAGUUUAAACGGUGG
((..((..--(-(((......--......((((....))))........--...(((((.(((((.......))))))))))...))))...))..)). ( -15.80)
>DroPer_CAF1 26807 93 + 1
UAAAGUAU--U-GAUGCAUAAA-AAUCAGCCAUAAAUAUGAGGCAAUAU--UUAUGUAAGUGGCGAUUAUUGCGCCAUUACGAUUAGUUAAUGUAUUAA
.......(--(-(((((((.((-((((...(((((((((......))))--)))))..(((((((.......)))))))..))))..)).))))))))) ( -23.80)
>consensus
CAAAGUAC__C_GAUGCAUAAA_AAUCAACAAUAAAUAUUAGGCAACAU__UUAUGUAAGUGGCGAUUAUUGCGCCAUUACGAUUAGUUUAUGUGGUAA
............((((((((((..(((..................((((....)))).(((((((.......)))))))..)))...)))))))))).. (-13.65 = -14.60 +   0.95)

alignment

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secondary structure

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dotplot

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Window 5

Location 2,445,579 – 2,445,673
Length 94
Sequences 6
Columns 99
Reading direction reverse
Mean pairwise identity 80.84
Mean single sequence MFE -16.85
Consensus MFE -11.09
Energy contribution -10.78
Covariance contribution -0.30
Combinations/Pair 1.27
Mean z-score -1.62
Structure conservation index 0.66
SVM decision value 0.26
SVM RNA-class probability 0.659455
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2445579 94 - 22407834
CUACCACAUAAACUACUCGUAAUGGCGCAAUAAUCGCCACUUACAUAA--AUGUUGCCUAAUAUCCAUUGUUGGUUUUUUAUGCAUG-G--GUACUUAG
.((((.(((.........(((((((((.......))))).))))....--.....((.(((...(((....)))....))).)))))-)--)))..... ( -20.10)
>DroPse_CAF1 26622 93 - 1
UUAAUACAUUAACUAAUCGUAAUGGCGCAAUAAUCGCCACUUACAUAA--AUAUUGCCUCAUAUUUAUGGCUGAUU-UUUAUGCAUC-UUUAUGCUU--
..................(((((((((.......))))).))))((((--(.((((((..........))).))).-)))))((((.-...))))..-- ( -17.10)
>DroEre_CAF1 26640 93 - 1
CUACCACAUAAACUACUCGUAAUGGCGCAAUAAUCGCCACUUACAUAA--AUGUUGCCUAAUAUCCAUUGUUGAAU-UUUAUGCAUC-G--GCACUUAG
...((.............(((((((((.......))))).))))....--..(.(((.(((.((.((....)).))-.))).))).)-)--)....... ( -14.50)
>DroWil_CAF1 39033 96 - 1
UUAACACAUAAACUAAUUGUAAUGGCGCAAUAAUCGCCACUUACAUAAAAAUGUUGCUUAAUAUUUAUUGUUGAUU-UUUAUGUAUUUG--GUAUUUCA
...............(((((......)))))....((((..(((((((((((...((............))..)))-))))))))..))--))...... ( -16.50)
>DroAna_CAF1 31971 92 - 1
CCACCGUUUAAACUGAUCGUAAUGGCGCAAUAAUCGCCACUUACAUAG--AUGUUGCUCAAUAUUUAUUGUCGAUU--UUAUGUAGC-C--ACACUUUG
.....(((......(((((((((((((.......))))).))))((((--(((((....)))))))))....))))--......)))-.--........ ( -17.40)
>DroPer_CAF1 26807 93 - 1
UUAAUACAUUAACUAAUCGUAAUGGCGCAAUAAUCGCCACUUACAUAA--AUAUUGCCUCAUAUUUAUGGCUGAUU-UUUAUGCAUC-A--AUACUUUA
..................(((.((..(((..((((((((......(((--((((......))))))))))).))))-....)))..)-)--.))).... ( -15.50)
>consensus
CUAACACAUAAACUAAUCGUAAUGGCGCAAUAAUCGCCACUUACAUAA__AUGUUGCCUAAUAUUUAUUGUUGAUU_UUUAUGCAUC_G__AUACUUAG
......(((((...(((((((((((((.......))))).))))..............((((....))))..))))..)))))................ (-11.09 = -10.78 +  -0.30)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:47:21 2006