Locus 1216

Sequence ID X_DroMel_CAF1
Location 3,622,714 – 3,622,809
Length 95
Max. P 0.559518
window1952 window1953

overview

Window 2

Location 3,622,714 – 3,622,809
Length 95
Sequences 4
Columns 95
Reading direction forward
Mean pairwise identity 83.68
Mean single sequence MFE -30.30
Consensus MFE -19.71
Energy contribution -21.52
Covariance contribution 1.81
Combinations/Pair 1.04
Mean z-score -1.65
Structure conservation index 0.65
SVM decision value 0.05
SVM RNA-class probability 0.559518
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3622714 95 + 22224390
AGCGAAUAGAAUAACAGCUCAUUGUGCUGAGCGCCCAGCCUGCGUCGACUGCGACACCAGCGUUAACAGCGACGCCUGCAAAAUUGGGCCACAAA
................(((((......)))))(((((((..((((((.(((.(((......)))..)))))))))..)).....)))))...... ( -30.60)
>DroSec_CAF1 1605 95 + 1
AGCGAAUACAAUAACAGCUCAUUGUGCUGAGCGUCCAGCCUGCGUCGACUGCGACACCAGCGUUAACAGCGACGCUUGCAAAAUUGGGCCACAAA
................(((((......)))))(((((((..((((((.(((.(((......)))..)))))))))..)).....)))))...... ( -28.80)
>DroEre_CAF1 1598 95 + 1
AGCGAUUACAAUAACAGCUCAUUGUGCUGAGCGCCCAGCCUGCGUCGACUGCGACACCAGCGUUAACAGCGACGCUCGCAAAAUUGGGCCACAAA
................(((((......)))))(((((((..((((((.(((.(((......)))..)))))))))..)).....)))))...... ( -31.40)
>DroAna_CAF1 6771 80 + 1
AGCGAGUG-----GCAGG-GA--UUGCUGCGCGCCGAGCCUGCGUCGACAGCGACGCCAGCGUUAACAG-------UGCCAAAUUGGGCCACACA
.....(((-----((...-((--((...((((....(((((((((((....))))).))).)))....)-------)))..))))..)))))... ( -30.40)
>consensus
AGCGAAUACAAUAACAGCUCAUUGUGCUGAGCGCCCAGCCUGCGUCGACUGCGACACCAGCGUUAACAGCGACGCUUGCAAAAUUGGGCCACAAA
..............((((.......)))).(.((((((..(((((((....))))....(((((......)))))..)))...)))))))..... (-19.71 = -21.52 +   1.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 3,622,714 – 3,622,809
Length 95
Sequences 4
Columns 95
Reading direction reverse
Mean pairwise identity 83.68
Mean single sequence MFE -33.67
Consensus MFE -23.42
Energy contribution -24.30
Covariance contribution 0.88
Combinations/Pair 1.08
Mean z-score -1.52
Structure conservation index 0.70
SVM decision value 0.02
SVM RNA-class probability 0.541403
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3622714 95 - 22224390
UUUGUGGCCCAAUUUUGCAGGCGUCGCUGUUAACGCUGGUGUCGCAGUCGACGCAGGCUGGGCGCUCAGCACAAUGAGCUGUUAUUCUAUUCGCU
...((((((((.....((..((((((((((..((....))...)))).))))))..)))))))(((((......)))))............))). ( -37.20)
>DroSec_CAF1 1605 95 - 1
UUUGUGGCCCAAUUUUGCAAGCGUCGCUGUUAACGCUGGUGUCGCAGUCGACGCAGGCUGGACGCUCAGCACAAUGAGCUGUUAUUGUAUUCGCU
...((((..((((...(((.((.(((.(((....(((((((((.(((((......)))))))))).))))))).)))))))).))))...)))). ( -32.00)
>DroEre_CAF1 1598 95 - 1
UUUGUGGCCCAAUUUUGCGAGCGUCGCUGUUAACGCUGGUGUCGCAGUCGACGCAGGCUGGGCGCUCAGCACAAUGAGCUGUUAUUGUAAUCGCU
...((((((((.....((..((((((((((..((....))...)))).))))))..)))))))(((((......)))))............))). ( -35.50)
>DroAna_CAF1 6771 80 - 1
UGUGUGGCCCAAUUUGGCA-------CUGUUAACGCUGGCGUCGCUGUCGACGCAGGCUCGGCGCGCAGCAA--UC-CCUGC-----CACUCGCU
.(.(((((((.....))..-------........((((((((((..(((......))).)))))).))))..--..-...))-----))).)... ( -30.00)
>consensus
UUUGUGGCCCAAUUUUGCAAGCGUCGCUGUUAACGCUGGUGUCGCAGUCGACGCAGGCUGGGCGCUCAGCACAAUGAGCUGUUAUUGUAUUCGCU
...((((((((.....(((........)))....(((.((((((....)))))).))))))))(((((......)))))............))). (-23.42 = -24.30 +   0.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:04:07 2006