Locus 3821

Sequence ID X_DroMel_CAF1
Location 10,155,981 – 10,156,135
Length 154
Max. P 0.676640
window6284 window6285

overview

Window 4

Location 10,155,981 – 10,156,095
Length 114
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 87.89
Mean single sequence MFE -21.68
Consensus MFE -15.22
Energy contribution -14.74
Covariance contribution -0.48
Combinations/Pair 1.23
Mean z-score -2.00
Structure conservation index 0.70
SVM decision value 0.30
SVM RNA-class probability 0.676640
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10155981 114 - 22224390
ACAAAAGACGUAGUUUCAUUAAUUGAAAUAAAUAGCGAAAAAAAAAGUACUGAAGGAGCUGCUGUUUUCUUGUUGAACGAAACAAAAGAAAAAGUAUUAAGCAGCCCAAGACGA------
........(((.((((((.....)))))).........................((.((((((.((((((((((......))))..)))))).......))))))))...))).------ ( -23.80)
>DroSec_CAF1 2431 110 - 1
ACAAAAGAAGCAGCUUCAUUAAUUGAAAUAAAUAGCGAAA---GAAGCACUGA-GGAGCUGCUGUUUUGUUGUUGAACGAAACAAAAGAAAAAGAAUUAAGCAGCCAAAGACGA------
........(((((((((....(((......))).((....---...)).....-)))))))))((((((((....))))))))...............................------ ( -22.50)
>DroSim_CAF1 5003 110 - 1
ACAAAAGACGCAGCUUCAUUAAUUGAAAUAAAUAGCGAAA---GAAGCACUGA-GGAGCUGCUGUUUUGUUGUUGAACGAAACAAAAGAAAAAGAAUUCGGCAGCCAAAGACGA------
.........((((((((....(((......))).((....---...)).....-))))))))(((((((((((((((...................)))))))))..)))))).------ ( -24.11)
>DroEre_CAF1 24130 110 - 1
ACAAAAGACGUAGCUUCAUUAAUUGAAAUAAAUAGCGAAA---AAAGCACUGA-GGAGCUGCUAUUUUCUUGUUGAACGAAACAAAAGGAAAAGAAUUAGACGGCCUAAGACGA------
.........((((((((....(((......))).((....---...)).....-))))))))..(((((((.(((.......))).)))))))(..((((.....))))..)..------ ( -18.90)
>DroYak_CAF1 4800 116 - 1
CCAAAAGACGCAGCUUCAUUAAUUGAAAUAAAUAGGGAAA---AAAGCACUGA-GGAGCUGCUAUUCCGUUGUUAGACGAAACAAAAGAAAAAGAAUUAAGCAGCCUUAGACGAAGACGA
........((...((((....(((......))).......---......((((-(..((((((((((((((....))))...(....).....))))..)))))))))))..)))).)). ( -19.10)
>consensus
ACAAAAGACGCAGCUUCAUUAAUUGAAAUAAAUAGCGAAA___AAAGCACUGA_GGAGCUGCUGUUUUGUUGUUGAACGAAACAAAAGAAAAAGAAUUAAGCAGCCAAAGACGA______
.........((((((((....(((......))).((..........))......))))))))..((((.(((((......))))).)))).............................. (-15.22 = -14.74 +  -0.48)

alignment

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secondary structure

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dotplot

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Window 5

Location 10,156,015 – 10,156,135
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 92.52
Mean single sequence MFE -27.72
Consensus MFE -23.36
Energy contribution -23.84
Covariance contribution 0.48
Combinations/Pair 1.11
Mean z-score -1.31
Structure conservation index 0.84
SVM decision value 0.16
SVM RNA-class probability 0.613658
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10156015 120 - 22224390
AUGUGUGUUGAGAGCCCUUUUGUUUGGGAUUAAUUAAGCGACAAAAGACGUAGUUUCAUUAAUUGAAAUAAAUAGCGAAAAAAAAAGUACUGAAGGAGCUGCUGUUUUCUUGUUGAACGA
..((..(((((...(((........))).)))))...))((((((((((((((((((....(((......))).((..........))......)))))))).))))).)))))...... ( -22.40)
>DroSec_CAF1 2465 116 - 1
AAGUGUGUUGAGAGCCCUUUUCUUUGGGAUUAAUUAAGCGACAAAAGAAGCAGCUUCAUUAAUUGAAAUAAAUAGCGAAA---GAAGCACUGA-GGAGCUGCUGUUUUGUUGUUGAACGA
......(((((...(((........))).)))))..((((((((((..(((((((((....(((......))).((....---...)).....-))))))))).))))))))))...... ( -32.60)
>DroSim_CAF1 5037 116 - 1
AAGUGUGUUGAGAGCCCUUUUGUUUGGGAUUAAUUAGGCGACAAAAGACGCAGCUUCAUUAAUUGAAAUAAAUAGCGAAA---GAAGCACUGA-GGAGCUGCUGUUUUGUUGUUGAACGA
......(((((...(((........))).)))))..((((((((((.(.((((((((....(((......))).((....---...)).....-))))))))).))))))))))...... ( -31.40)
>DroEre_CAF1 24164 116 - 1
AAGUGUGUUGAGAGCCCUUUUGUUUGGGAUUAAUUAAGCGACAAAAGACGUAGCUUCAUUAAUUGAAAUAAAUAGCGAAA---AAAGCACUGA-GGAGCUGCUAUUUUCUUGUUGAACGA
..((..(((((...(((........))).)))))...))(((((.(((.((((((((....(((......))).((....---...)).....-))))))))...))).)))))...... ( -24.00)
>DroYak_CAF1 4840 116 - 1
AAGUGUGUUGAGAGCCCUUUUGUUUGGGAUUAAUUAAGCGCCAAAAGACGCAGCUUCAUUAAUUGAAAUAAAUAGGGAAA---AAAGCACUGA-GGAGCUGCUAUUCCGUUGUUAGACGA
....(((((.....(((((((((((.(.((((((.((((((........)).)))).))))))).))))))).))))...---..)))))...-((((......))))(((....))).. ( -28.20)
>consensus
AAGUGUGUUGAGAGCCCUUUUGUUUGGGAUUAAUUAAGCGACAAAAGACGCAGCUUCAUUAAUUGAAAUAAAUAGCGAAA___AAAGCACUGA_GGAGCUGCUGUUUUGUUGUUGAACGA
...((((((((...(((........))).)))))..((((((((((.(.((((((((....(((......))).((..........))......))))))))).))))))))))..))). (-23.36 = -23.84 +   0.48)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:09:31 2006