Locus 2320

Sequence ID 3R_DroMel_CAF1
Location 6,605,201 – 6,605,294
Length 93
Max. P 0.999593
window3754 window3755

overview

Window 4

Location 6,605,201 – 6,605,294
Length 93
Sequences 6
Columns 94
Reading direction forward
Mean pairwise identity 93.29
Mean single sequence MFE -26.85
Consensus MFE -22.88
Energy contribution -23.38
Covariance contribution 0.50
Combinations/Pair 1.00
Mean z-score -2.61
Structure conservation index 0.85
SVM decision value 1.79
SVM RNA-class probability 0.977214
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6605201 93 + 27905053
AUCCGCACGCUGCUUGACAUUUUGUAAUUUGAACAAAUUGCUUGCAUUUUUA-GGCAACUCCUAUAAAUAGUGGAGUUGCUGCUGCUGGAAAUA
.((((((.(((((..(.((.(((((.......))))).)))..)))......-(((((((((..........)))))))))))))).))).... ( -30.50)
>DroSec_CAF1 10118 93 + 1
AUCCGCACGCUGCUUGACAUUUUGUAAUUUGAACAAAUUGCUCGCAUUUUUG-GGCAACUCCUAUAAAUAGUGGAGUUGCUGUCGCUGGAAAUA
.(((((((..(((..(.((.(((((.......))))).)))..)))......-(((((((((..........))))))))))).)).))).... ( -26.90)
>DroSim_CAF1 12090 93 + 1
AUCCGCACGCUGCUUGACAUUUUGUAAUUUGAACAAAUUGCUCGCAUUUUUG-GGCAACUCCUAUAAAUAAUGGAGUUGCUGUCGCUGGAAAUA
.(((((((..(((..(.((.(((((.......))))).)))..)))......-(((((((((..........))))))))))).)).))).... ( -26.90)
>DroEre_CAF1 10364 94 + 1
AUCCGCACGUUGCUUGACAUUUUGUAAUUUGAACAAAUUGCACGCAUUUUUGGGGCAACUCCUAUAAAUAGUGGAGUUGCUGCCGCUGGAAAUA
.(((((....(((.((.((.(((((.......))))).)))).))).....(((((((((((..........))))))))).)))).))).... ( -30.40)
>DroYak_CAF1 10363 93 + 1
AUCCGCACGUUGCUUGACAUUUUGUAAUUUGAACAAAUUGCUCGCAUUUUUG-GGCAACUCCUAUAAAUAGUGGAGUUGCUGCCGCUGGAAAUA
.(((((....(((..(.((.(((((.......))))).)))..)))......-(((((((((..........)))))))))...)).))).... ( -26.80)
>DroAna_CAF1 15133 92 + 1
AUCUGCACACUGCCUGACAUUUUGUAAUUUG-ACAAAUUGCUUGAAUUUUUG-GGCAACUCCUAUAAAUAGUGGAGUUACUGCCGCUCGAAAAG
.((.((.....(((..(.((((.((((((..-...))))))..))))..)..-)))((((((..........))))))......))..)).... ( -19.60)
>consensus
AUCCGCACGCUGCUUGACAUUUUGUAAUUUGAACAAAUUGCUCGCAUUUUUG_GGCAACUCCUAUAAAUAGUGGAGUUGCUGCCGCUGGAAAUA
.(((((....(((..(.((.(((((.......))))).)))..))).......(((((((((..........)))))))))...)).))).... (-22.88 = -23.38 +   0.50)

alignment

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secondary structure

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dotplot

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Window 5

Location 6,605,201 – 6,605,294
Length 93
Sequences 6
Columns 94
Reading direction reverse
Mean pairwise identity 93.29
Mean single sequence MFE -26.00
Consensus MFE -23.59
Energy contribution -23.57
Covariance contribution -0.03
Combinations/Pair 1.08
Mean z-score -3.06
Structure conservation index 0.91
SVM decision value 3.76
SVM RNA-class probability 0.999593
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6605201 93 - 27905053
UAUUUCCAGCAGCAGCAACUCCACUAUUUAUAGGAGUUGCC-UAAAAAUGCAAGCAAUUUGUUCAAAUUACAAAAUGUCAAGCAGCGUGCGGAU
....(((.(((((.((((((((..........)))))))).-......(((..(((.(((((.......))))).)))...))))).)))))). ( -28.50)
>DroSec_CAF1 10118 93 - 1
UAUUUCCAGCGACAGCAACUCCACUAUUUAUAGGAGUUGCC-CAAAAAUGCGAGCAAUUUGUUCAAAUUACAAAAUGUCAAGCAGCGUGCGGAU
....(((.(((.(.((((((((..........)))))))).-......(((..(((.(((((.......))))).)))...)))))))..))). ( -26.90)
>DroSim_CAF1 12090 93 - 1
UAUUUCCAGCGACAGCAACUCCAUUAUUUAUAGGAGUUGCC-CAAAAAUGCGAGCAAUUUGUUCAAAUUACAAAAUGUCAAGCAGCGUGCGGAU
....(((.(((.(.((((((((..........)))))))).-......(((..(((.(((((.......))))).)))...)))))))..))). ( -26.90)
>DroEre_CAF1 10364 94 - 1
UAUUUCCAGCGGCAGCAACUCCACUAUUUAUAGGAGUUGCCCCAAAAAUGCGUGCAAUUUGUUCAAAUUACAAAAUGUCAAGCAACGUGCGGAU
....(((.((((..((((((((..........)))))))).)).....(((.((((.(((((.......))))).)).)).)))....))))). ( -27.70)
>DroYak_CAF1 10363 93 - 1
UAUUUCCAGCGGCAGCAACUCCACUAUUUAUAGGAGUUGCC-CAAAAAUGCGAGCAAUUUGUUCAAAUUACAAAAUGUCAAGCAACGUGCGGAU
....(((.(((...((((((((..........)))))))).-......(((..(((.(((((.......))))).)))...))).)))..))). ( -27.20)
>DroAna_CAF1 15133 92 - 1
CUUUUCGAGCGGCAGUAACUCCACUAUUUAUAGGAGUUGCC-CAAAAAUUCAAGCAAUUUGU-CAAAUUACAAAAUGUCAGGCAGUGUGCAGAU
..........((..((((((((..........)))))))))-)..........(((..((((-(..((........))..)))))..))).... ( -18.80)
>consensus
UAUUUCCAGCGGCAGCAACUCCACUAUUUAUAGGAGUUGCC_CAAAAAUGCGAGCAAUUUGUUCAAAUUACAAAAUGUCAAGCAGCGUGCGGAU
....(((.((.((.((((((((..........))))))))........(((..(((.(((((.......))))).)))...)))..))))))). (-23.59 = -23.57 +  -0.03)

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 10:32:33 2006