Locus 4926

Sequence ID X_DroMel_CAF1
Location 12,831,528 – 12,831,756
Length 228
Max. P 0.929442
window8035 window8036 window8037

overview

Window 5

Location 12,831,528 – 12,831,628
Length 100
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 80.40
Mean single sequence MFE -26.34
Consensus MFE -17.11
Energy contribution -17.60
Covariance contribution 0.49
Combinations/Pair 1.05
Mean z-score -1.91
Structure conservation index 0.65
SVM decision value 0.59
SVM RNA-class probability 0.793142
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12831528 100 + 22224390
AU--------------GCUAUAUUCCAAUAUCAUUCAUGUCAUAUCCUGGCGCCUGUAGCAAACAUGCAUACAUGCAUGUGAAAUUGAUGGAUCAGUUUCAGUU------UCAGUUCGCU
..--------------................................((((.(((.(((..(((((((....)))))))((((((((....)))))))).)))------.)))..)))) ( -24.20)
>DroSec_CAF1 29448 100 + 1
AU--------------GAUAUAUUCCAAUAUCAUUCAUGUCAUAUCCCGGCGCCAGAGGCAAACAUGCAUACAUGCAUGUGAAAUUGAUGGAUCAGUUUCAGUU------UCAGUUCGCU
((--------------(((((......)))))))..............((((...(((((..(((((((....)))))))((((((((....)))))))).)))------))....)))) ( -27.40)
>DroSim_CAF1 39219 100 + 1
AU--------------GCUAUAUUCCAAUAUCAUUCAUGCCAUAUCCCGGCGCCAGAGGCAAACAUGCAUACAUGCAUGUGAAAUUGAUGGAUCAGUUUCAGUU------UCAGUUCGCU
..--------------((....................(((.......)))....(((((..(((((((....)))))))((((((((....)))))))).)))------)).....)). ( -26.00)
>DroEre_CAF1 37188 86 + 1
AUGGU----------CGGUAUAUUCCAAUAUAAUUCAUGUCAUAUCCUGGCGCCCGAGGCAAACAU--------GCAUGUGAAAUUGAUGGAUCAGCUUCAGCU----------------
.((((----------(((......))........(((..(((((((.((..(((...)))...)).--------).))))))...)))..)))))((....)).---------------- ( -17.70)
>DroYak_CAF1 38054 120 + 1
AUGGUAUAUGGUAUAUGGUGUAUUCCAAUAUCAUUCAUGUCAUAUCCUGGCGCCUGAGGCAAACAUGCAUACAUGCAUGUGAAAUUGAUGGAUCAGUUUCAGUUUCAGUUUCAGUUCGGU
(((..(((((((((.(((......))))))))))..))..)))...((((.((.((((((..(((((((....)))))))((((((((....)))))))).)))))))).))))...... ( -36.40)
>consensus
AU______________GCUAUAUUCCAAUAUCAUUCAUGUCAUAUCCUGGCGCCAGAGGCAAACAUGCAUACAUGCAUGUGAAAUUGAUGGAUCAGUUUCAGUU______UCAGUUCGCU
......................................(((.......)))((.....))..(((((((....)))))))((((((((....)))))))).................... (-17.11 = -17.60 +   0.49)

alignment

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secondary structure

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dotplot

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Window 6

Location 12,831,554 – 12,831,657
Length 103
Sequences 4
Columns 113
Reading direction forward
Mean pairwise identity 91.36
Mean single sequence MFE -30.70
Consensus MFE -24.27
Energy contribution -24.28
Covariance contribution 0.00
Combinations/Pair 1.04
Mean z-score -2.62
Structure conservation index 0.79
SVM decision value 1.20
SVM RNA-class probability 0.929442
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12831554 103 + 22224390
CAUAUCCUGGCGCCUGUAGCAAACAUGCAUACAUGCAUGUGAAAUUGAUGGAUCAGUUUCAGUU------UCAGUUCGCUGGUAUAU----AUGUUUCUGUUUCUGCUUUUGU
.((((.(..(((.(((.(((..(((((((....)))))))((((((((....)))))))).)))------.)))..)))..).))))----...................... ( -29.50)
>DroSec_CAF1 29474 103 + 1
CAUAUCCCGGCGCCAGAGGCAAACAUGCAUACAUGCAUGUGAAAUUGAUGGAUCAGUUUCAGUU------UCAGUUCGCUGGUAUAU----AUAUUUCUGUUUCUGCUUUUGU
.((((.((((((...(((((..(((((((....)))))))((((((((....)))))))).)))------))....)))))).))))----...................... ( -31.40)
>DroSim_CAF1 39245 103 + 1
CAUAUCCCGGCGCCAGAGGCAAACAUGCAUACAUGCAUGUGAAAUUGAUGGAUCAGUUUCAGUU------UCAGUUCGCUGGUAUAU----AUGUUUCUGUUUCUGCUUUUGU
.((((.((((((...(((((..(((((((....)))))))((((((((....)))))))).)))------))....)))))).))))----...................... ( -31.40)
>DroYak_CAF1 38094 113 + 1
CAUAUCCUGGCGCCUGAGGCAAACAUGCAUACAUGCAUGUGAAAUUGAUGGAUCAGUUUCAGUUUCAGUUUCAGUUCGGUGGUAUAUAUGUAUGUUUCUCUUUUUGCUUUUGU
........((((...((((.(((((((((((.((((.(((((((((((((((.....))))...)))))))))...))...)))).))))))))))).))))..))))..... ( -30.50)
>consensus
CAUAUCCCGGCGCCAGAGGCAAACAUGCAUACAUGCAUGUGAAAUUGAUGGAUCAGUUUCAGUU______UCAGUUCGCUGGUAUAU____AUGUUUCUGUUUCUGCUUUUGU
.((((.(((((((.....))..(((((((....)))))))((((((((....)))))))).................))))).)))).......................... (-24.27 = -24.28 +   0.00)

alignment

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secondary structure

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dotplot

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Window 7

Location 12,831,657 – 12,831,756
Length 99
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 74.95
Mean single sequence MFE -28.48
Consensus MFE -9.86
Energy contribution -10.74
Covariance contribution 0.88
Combinations/Pair 1.18
Mean z-score -2.01
Structure conservation index 0.35
SVM decision value 0.93
SVM RNA-class probability 0.884217
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12831657 99 + 22224390
UGUCGCCGCCUAUAUGGCUAUAUGAC--------------------UGGCUAUAUGGCUGUAUAG-UGCGCUUUUCUGGCCUCCGCCAAGUGGCUUCUGUUCUGAUAUUUGCAUAACGUU
.(((((((((((((((((((((((..--------------------....)))))))))))))))-.)))......((((....)))).)))))....(((.((.......)).)))... ( -31.70)
>DroSec_CAF1 29577 84 + 1
UGUCGCCGGCUA----------------------------------UGGCUAUAUGGCU--AUAGUUGCUCUUUUUUGGCCUCCGCCAAGUAGCUUCUGUUCUGAUAUUUGCAUAACGUU
((((...(((((----------------------------------(((((....))))--))))))(((....((((((....)))))).))).........))))............. ( -21.80)
>DroSim_CAF1 39348 120 + 1
UGUCGCCGGCUAUAUGGAUGUAUGGCUAUAUAGCUGUAUGGCUAUAUGGCUAUAUGGCUGUAUAGUUGCUCUUUUCUGGCCUCCGCCAAGUGGCUUCUGUUCUGAUAUUUGCAUAACGUU
.((((((((((((((((..((((((((((((((((....))))))))))))))))..)))))))))))........((((....)))).)))))....(((.((.......)).)))... ( -44.60)
>DroEre_CAF1 37314 95 + 1
UGUCGCUGGCCAUGUGGC------------------------UAUAUGGAUAUAUGGCAAUAUAGUUGCUCUUUUCUGGCCUCCAUCAAGUGGCUUCUGCGCUGAUAUUUGCAUAACGU-
.(((((((((((.(..((------------------------(((((............)))))))..).......))))).......))))))......((........)).......- ( -22.71)
>DroYak_CAF1 38207 88 + 1
UGUCGCUGGC--------------------------------UAUAUGGCUGUAUGGCUGUAUAGUUGCUCUUUUCUGGCCUCCAUCAAGUGGCUUCUUCUCUGAUAUUUGCAUAACGUU
((((((.(((--------------------------------(((((((((....))))))))))))))........((((.(......).))))........))))............. ( -21.60)
>consensus
UGUCGCCGGCUAU_UGG_________________________UAUAUGGCUAUAUGGCUGUAUAGUUGCUCUUUUCUGGCCUCCGCCAAGUGGCUUCUGUUCUGAUAUUUGCAUAACGUU
.(((((.........................................((((((((....)))))))).........((((....)))).))))).......................... ( -9.86 = -10.74 +   0.88)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:36:16 2006