Locus 171

Sequence ID 2R_DroMel_CAF1
Location 1,428,911 – 1,429,030
Length 119
Max. P 0.926589
window384 window385

overview

Window 4

Location 1,428,911 – 1,429,030
Length 119
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 94.83
Mean single sequence MFE -23.34
Consensus MFE -22.54
Energy contribution -22.26
Covariance contribution -0.28
Combinations/Pair 1.10
Mean z-score -1.17
Structure conservation index 0.97
SVM decision value 0.60
SVM RNA-class probability 0.796248
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1428911 119 + 20766785
U-UUUUUGCCCUUUGUUUGUUGUUUCUAUCGGUGUUGCUGUUGCUAAGGAAAAUCUUUUGUUUGCACAGCUUUUUGCAAUUUUUGCCACUAAUUGAAAUAGAAUUUCUGCUUUGUUGUAG
.-.................(((((((.((..(((..(((((.((.((.(((.....))).)).))))))).....(((.....))))))..)).))))))).....((((......)))) ( -22.50)
>DroSec_CAF1 47372 119 + 1
U-UUCUUGCCCUUUGUUUGCUGUUUCCAUCGGUGUUGCUGUUGCUAAGGAAAAUCUUUUGUUUGCGCAGCUUUUUGCAAUUUUUGCCACUAAUUGAAAUAGAAUUUCUGCUUUGUUGUAG
.-.................(((((((.((..(((..(((((.((.((.(((.....))).)).))))))).....(((.....))))))..)).))))))).....((((......)))) ( -24.40)
>DroSim_CAF1 52423 120 + 1
UUUUCUUGCCCUUUGUUUGCUGUUUCUAUCGGUGUUGCUGUUGCUAAGGAAAAUCUUUUGUUUGCACAGCUUUUUGCAAUUUUUGCCACUAAUUGAAAUAGAAUUUCUGCUUUGUUGUAG
...................(((((((.((..(((..(((((.((.((.(((.....))).)).))))))).....(((.....))))))..)).))))))).....((((......)))) ( -24.80)
>DroEre_CAF1 45493 120 + 1
UUUUCUUGCCCUUUGUUUGCUGUUUCUAUCGGUGUUGCUGUUGCUAAGGAAAAUCUUUUGUUUGCACAGCUUUUUGCAAUUUUUGCCACUAAUUGAAAUAGAAUUUCUGCUUUGUUGUAG
...................(((((((.((..(((..(((((.((.((.(((.....))).)).))))))).....(((.....))))))..)).))))))).....((((......)))) ( -24.80)
>DroYak_CAF1 49991 115 + 1
UUUUCUUGCC----GUUUGCUGUUUCUAUCGGUGUUGCUAUAGCUAAAGAAAAUCUUUUGUUUCCACAGCGU-UUGCAAUUUUUGCCACUAAUUGAAAUAGAAUUUCUGCUUUGUUGUAG
..........----.....(((((((.((..(((((((....(((...((((........))))...)))..-..)))).......)))..)).))))))).....((((......)))) ( -20.21)
>consensus
UUUUCUUGCCCUUUGUUUGCUGUUUCUAUCGGUGUUGCUGUUGCUAAGGAAAAUCUUUUGUUUGCACAGCUUUUUGCAAUUUUUGCCACUAAUUGAAAUAGAAUUUCUGCUUUGUUGUAG
...................(((((((.((..(((..(((((.((.((((.....)))).))....))))).....(((.....))))))..)).))))))).....((((......)))) (-22.54 = -22.26 +  -0.28) 

alignment

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secondary structure

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dotplot

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Window 5

Location 1,428,911 – 1,429,030
Length 119
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 94.83
Mean single sequence MFE -18.70
Consensus MFE -15.57
Energy contribution -15.81
Covariance contribution 0.24
Combinations/Pair 1.04
Mean z-score -1.82
Structure conservation index 0.83
SVM decision value 1.18
SVM RNA-class probability 0.926589
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1428911 119 - 20766785
CUACAACAAAGCAGAAAUUCUAUUUCAAUUAGUGGCAAAAAUUGCAAAAAGCUGUGCAAACAAAAGAUUUUCCUUAGCAACAGCAACACCGAUAGAAACAACAAACAAAGGGCAAAAA-A
..........((((.....)).((((.((..((((((.....))).....(((((((...................)).)))))..)))..)).)))).............)).....-. ( -18.01)
>DroSec_CAF1 47372 119 - 1
CUACAACAAAGCAGAAAUUCUAUUUCAAUUAGUGGCAAAAAUUGCAAAAAGCUGCGCAAACAAAAGAUUUUCCUUAGCAACAGCAACACCGAUGGAAACAGCAAACAAAGGGCAAGAA-A
..........((.(((((...))))).....(..((..............))..))).............(((((.((....))......(.((....)).).....)))))......-. ( -15.94)
>DroSim_CAF1 52423 120 - 1
CUACAACAAAGCAGAAAUUCUAUUUCAAUUAGUGGCAAAAAUUGCAAAAAGCUGUGCAAACAAAAGAUUUUCCUUAGCAACAGCAACACCGAUAGAAACAGCAAACAAAGGGCAAGAAAA
.................((((.((((.((..((((((.....))).....(((((((...................)).)))))..)))..)).))))..((.........)).)))).. ( -18.71)
>DroEre_CAF1 45493 120 - 1
CUACAACAAAGCAGAAAUUCUAUUUCAAUUAGUGGCAAAAAUUGCAAAAAGCUGUGCAAACAAAAGAUUUUCCUUAGCAACAGCAACACCGAUAGAAACAGCAAACAAAGGGCAAGAAAA
.................((((.((((.((..((((((.....))).....(((((((...................)).)))))..)))..)).))))..((.........)).)))).. ( -18.71)
>DroYak_CAF1 49991 115 - 1
CUACAACAAAGCAGAAAUUCUAUUUCAAUUAGUGGCAAAAAUUGCAA-ACGCUGUGGAAACAAAAGAUUUUCUUUAGCUAUAGCAACACCGAUAGAAACAGCAAAC----GGCAAGAAAA
..........((.......((.((((.((..((((((.....)))..-..(((((((.....((((.....))))..)))))))..)))..)).)))).)).....----.))....... ( -22.12)
>consensus
CUACAACAAAGCAGAAAUUCUAUUUCAAUUAGUGGCAAAAAUUGCAAAAAGCUGUGCAAACAAAAGAUUUUCCUUAGCAACAGCAACACCGAUAGAAACAGCAAACAAAGGGCAAGAAAA
..........((((.....)).((((.((..((((((.....))).....(((((((...................)).)))))..)))..)).)))).............))....... (-15.57 = -15.81 +   0.24) 

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 09:31:02 2006