Locus 5403

Sequence ID 3R_DroMel_CAF1
Location 14,212,588 – 14,212,725
Length 137
Max. P 0.753936
window8796 window8797

overview

Window 6

Location 14,212,588 – 14,212,705
Length 117
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 85.74
Mean single sequence MFE -28.94
Consensus MFE -17.74
Energy contribution -19.22
Covariance contribution 1.48
Combinations/Pair 1.14
Mean z-score -2.56
Structure conservation index 0.61
SVM decision value 0.43
SVM RNA-class probability 0.731400
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14212588 117 - 27905053
CUUUAAGGAUAUUUUGAUCGUCGUCGAAGAUGAUUAGAACCAUCAGGAUAGCCAUCGUGAUUCGCUCCUUGAAGAAGGUUUAAUUAAAAAAGCAUUACAGAAUA---AAAAGUACUUUAU
(((((((((..(((((((((((......)))))))))))..((((.(((....))).))))....)))))))))...((((........))))...........---............. ( -26.90)
>DroSec_CAF1 207255 119 - 1
UUUCAAGGAUAUUUUGAUCGUCGUCGAAGAUGAUUAGAAUCAUUAGGGGAGCCAUAGUGGUUCCCUCC-UGAAAAAGAUUUAAUUAAAAAAGCAUUACAAAAUACUAUGAAGUACUUUAU
(((((.(((.((((((((((((......))))))))))))......(((((((.....))))))))))-)))))........................(((.((((....)))).))).. ( -31.60)
>DroSim_CAF1 92999 119 - 1
UUUCAAGGAUAUUUUGAUCGUCGUCGAAGAUGAUUAGAAUCAUUAGGAGAGCCAUAGUGGUUCCCUCC-UGAAAAAGGUUUAAUUAAAAAAGCAUUACAAAAUACUAUGAAGUACUUUAU
.((((.(((.((((((((((((......)))))))))))).....((.(((((.....))))))))))-))))((((((((........)))).........((((....)))))))).. ( -29.20)
>DroEre_CAF1 82379 117 - 1
CUUCAAGGAUAUUUUGAUCGUCGUCGAAGACGAUUAGAAUCAUUAUGAGAGCCUUAGUGGUUGGCUCAUUAAAGAAGGUUUAAUUAA---AGCAUUACAAAAUACUUUGAAGUACUUUAU
((((((((..((((((((((((......)))))))))))).(((.((.(((((.........)))))..........((((.....)---)))....)).))).))))))))........ ( -31.20)
>DroYak_CAF1 74828 116 - 1
CUUUAAGGAUAUUUUGAUCGUCGUCGAAGAUGAUUAGAAUCAUCAGGAGAGCCAUAGUUC----CUAGUUAAUGAAGGUUUCAUUAAAGAAGCAUUACAAAAUUUUUUGAAGUACUUUAU
.......(((((((((((((((......)))))))))))).)))(((((........)))----)).....(((((((((((......)))))....((((....)))).....)))))) ( -25.80)
>consensus
CUUCAAGGAUAUUUUGAUCGUCGUCGAAGAUGAUUAGAAUCAUUAGGAGAGCCAUAGUGGUUCCCUCCUUGAAGAAGGUUUAAUUAAAAAAGCAUUACAAAAUACUAUGAAGUACUUUAU
(((((((((.((((((((((((......))))))))))))(((((((....)).)))))......))))))))).............................................. (-17.74 = -19.22 +   1.48)

alignment

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secondary structure

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dotplot

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Window 7

Location 14,212,625 – 14,212,725
Length 100
Sequences 5
Columns 100
Reading direction reverse
Mean pairwise identity 86.89
Mean single sequence MFE -29.30
Consensus MFE -19.24
Energy contribution -20.76
Covariance contribution 1.52
Combinations/Pair 1.16
Mean z-score -2.47
Structure conservation index 0.66
SVM decision value 0.48
SVM RNA-class probability 0.753936
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14212625 100 - 27905053
UAUCCGUUCACGCCAUUCAGCUUUAAGGAUAUUUUGAUCGUCGUCGAAGAUGAUUAGAACCAUCAGGAUAGCCAUCGUGAUUCGCUCCUUGAAGAAGGUU
...........(((......(((((((((..(((((((((((......)))))))))))..((((.(((....))).))))....)))))))))..))). ( -27.70)
>DroSec_CAF1 207295 99 - 1
UAUCCGUUCACUCCAUUCUGUUUCAAGGAUAUUUUGAUCGUCGUCGAAGAUGAUUAGAAUCAUUAGGGGAGCCAUAGUGGUUCCCUCC-UGAAAAAGAUU
................(((.(((((.(((.((((((((((((......))))))))))))......(((((((.....))))))))))-))))).))).. ( -33.30)
>DroSim_CAF1 93039 99 - 1
UAUCCGUUCACGCCAUUCUGUUUCAAGGAUAUUUUGAUCGUCGUCGAAGAUGAUUAGAAUCAUUAGGAGAGCCAUAGUGGUUCCCUCC-UGAAAAAGGUU
...........((((((((......)))))((((((((((((......))))))))))))..(((((((((((.....)))))..)))-)))....))). ( -29.00)
>DroEre_CAF1 82416 100 - 1
UAUCCGUUCACGCCCUUCUGCUUCAAGGAUAUUUUGAUCGUCGUCGAAGACGAUUAGAAUCAUUAUGAGAGCCUUAGUGGUUGGCUCAUUAAAGAAGGUU
.............((((((...(((..(((((((((((((((......)))))))))))).))).)))(((((.........))))).....)))))).. ( -31.60)
>DroYak_CAF1 74868 96 - 1
UAUCCGUUCACGCCCUUCUGCUUUAAGGAUAUUUUGAUCGUCGUCGAAGAUGAUUAGAAUCAUCAGGAGAGCCAUAGUUC----CUAGUUAAUGAAGGUU
.............(((((.(((((...(((((((((((((((......)))))))))))).)))...)))))..(((...----)))......))))).. ( -24.90)
>consensus
UAUCCGUUCACGCCAUUCUGCUUCAAGGAUAUUUUGAUCGUCGUCGAAGAUGAUUAGAAUCAUUAGGAGAGCCAUAGUGGUUCCCUCCUUGAAGAAGGUU
................(((.(((((((((.((((((((((((......))))))))))))(((((((....)).)))))......))))))))).))).. (-19.24 = -20.76 +   1.52)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:53:51 2006