Locus 8427

Sequence ID 3L_DroMel_CAF1
Location 22,133,871 – 22,133,990
Length 119
Max. P 0.943023
window13783 window13784

overview

Window 3

Location 22,133,871 – 22,133,990
Length 119
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 93.12
Mean single sequence MFE -17.32
Consensus MFE -14.26
Energy contribution -14.50
Covariance contribution 0.24
Combinations/Pair 1.04
Mean z-score -1.78
Structure conservation index 0.82
SVM decision value 1.10
SVM RNA-class probability 0.914913
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22133871 119 + 23771897
UCUCGGACAAUUGAAAGCGAUAUAUAAAAAAUAGUCACUUACUCUGGCUCGCUCUAUCUCGCUUCCUUUGUUUCUUCUCAUAAUUCCUUCC-UUUUUAUGAAUUCUUUUUUGUUUUUCCA
....((((((..(((.((((.(((........(((((.......))))).....))).)))))))..))).......((((((........-...))))))...............))). ( -16.42)
>DroSec_CAF1 119730 118 + 1
UCUCGGACAAUUGAAAGCGAUAUAUAAAAAAUAGUCACUUCCUCUGGCUCGCUCUAUCUCGCUUCCUUUGUUUCUUCUCAUAAUUCCUCCC-UUUUUAUGAAUUCUUU-UUAUUCCUCCA
....((((((..(((.((((.(((........(((((.......))))).....))).)))))))..))).......((((((........-...)))))).......-.......))). ( -16.32)
>DroSim_CAF1 127800 118 + 1
UCUCGGACAAUUGAAAGCGAUAUAUAAAAAAUAGUCACUUCCUCUGGCUCGCUCUAUCUCGCUUCCUUUGUUUCUUCUCAUAAUUCCUCCC-UUUUUAUGAAUUCUUU-UUAUUCCUCCA
....((((((..(((.((((.(((........(((((.......))))).....))).)))))))..))).......((((((........-...)))))).......-.......))). ( -16.32)
>DroEre_CAF1 119550 118 + 1
GCUCGGACAAUUGAAAGCGAUAUAUAAAAAAUAGUCACUUCCUCUGGCUCGCUCUAUCUGGCUUCCCUUGUUUCUUCUCAUAAUUCCUGCCAUUUUGGUGAAUUCUU--UUAUUUCUCCU
....(((.((.((((((.(((............((((.......))))(((((..(..((((.....((((........)))).....))))..).)))))))))))--))).)).))). ( -17.90)
>DroYak_CAF1 167160 119 + 1
UCUGGGACAAUUGAAAGCGAUAUAUAAAAAAUAGUCACUUCCUCUGGCUCGCUCUAUCUCGCUUCCUUUGUUUCUUUUCAUAAUUCCGGUCAUUUUUAUGAAUUCUUU-UUAUUUCUCCU
...(..((((..(((.((((.(((........(((((.......))))).....))).)))))))..))))..)..(((((((............)))))))......-........... ( -19.62)
>consensus
UCUCGGACAAUUGAAAGCGAUAUAUAAAAAAUAGUCACUUCCUCUGGCUCGCUCUAUCUCGCUUCCUUUGUUUCUUCUCAUAAUUCCUCCC_UUUUUAUGAAUUCUUU_UUAUUUCUCCA
....((((((..(((.((((.(((........(((((.......))))).....))).)))))))..))).......((((((............))))))...............))). (-14.26 = -14.50 +   0.24)

alignment

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secondary structure

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dotplot

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Window 4

Location 22,133,871 – 22,133,990
Length 119
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 93.12
Mean single sequence MFE -21.60
Consensus MFE -19.54
Energy contribution -19.74
Covariance contribution 0.20
Combinations/Pair 1.07
Mean z-score -1.50
Structure conservation index 0.90
SVM decision value 1.33
SVM RNA-class probability 0.943023
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22133871 119 - 23771897
UGGAAAAACAAAAAAGAAUUCAUAAAAA-GGAAGGAAUUAUGAGAAGAAACAAAGGAAGCGAGAUAGAGCGAGCCAGAGUAAGUGACUAUUUUUUAUAUAUCGCUUUCAAUUGUCCGAGA
.(((..............(((((((...-........)))))))..........((((((((.((((((..((.((.......)).))...))))))...)))))))).....))).... ( -20.40)
>DroSec_CAF1 119730 118 - 1
UGGAGGAAUAA-AAAGAAUUCAUAAAAA-GGGAGGAAUUAUGAGAAGAAACAAAGGAAGCGAGAUAGAGCGAGCCAGAGGAAGUGACUAUUUUUUAUAUAUCGCUUUCAAUUGUCCGAGA
.(((.((....-......(((((((...-........)))))))..........((((((((.((((((..((.((.......)).))...))))))...))))))))..)).))).... ( -22.20)
>DroSim_CAF1 127800 118 - 1
UGGAGGAAUAA-AAAGAAUUCAUAAAAA-GGGAGGAAUUAUGAGAAGAAACAAAGGAAGCGAGAUAGAGCGAGCCAGAGGAAGUGACUAUUUUUUAUAUAUCGCUUUCAAUUGUCCGAGA
.(((.((....-......(((((((...-........)))))))..........((((((((.((((((..((.((.......)).))...))))))...))))))))..)).))).... ( -22.20)
>DroEre_CAF1 119550 118 - 1
AGGAGAAAUAA--AAGAAUUCACCAAAAUGGCAGGAAUUAUGAGAAGAAACAAGGGAAGCCAGAUAGAGCGAGCCAGAGGAAGUGACUAUUUUUUAUAUAUCGCUUUCAAUUGUCCGAGC
.(((.((....--...(((((.((.....))...))))).(((..........((....)).....((((((.....(((((((....))))))).....))))))))).)).))).... ( -21.90)
>DroYak_CAF1 167160 119 - 1
AGGAGAAAUAA-AAAGAAUUCAUAAAAAUGACCGGAAUUAUGAAAAGAAACAAAGGAAGCGAGAUAGAGCGAGCCAGAGGAAGUGACUAUUUUUUAUAUAUCGCUUUCAAUUGUCCCAGA
.(((.((....-......(((((((............)))))))..........((((((((.((((((..((.((.......)).))...))))))...))))))))..)).))).... ( -21.30)
>consensus
UGGAGAAAUAA_AAAGAAUUCAUAAAAA_GGCAGGAAUUAUGAGAAGAAACAAAGGAAGCGAGAUAGAGCGAGCCAGAGGAAGUGACUAUUUUUUAUAUAUCGCUUUCAAUUGUCCGAGA
.(((.((...........(((((((............)))))))..........((((((((.((((((..((.((.......)).))...))))))...))))))))..)).))).... (-19.54 = -19.74 +   0.20)

alignment

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secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:15:07 2006