Locus 3988

Sequence ID 2L_DroMel_CAF1
Location 11,612,243 – 11,612,349
Length 106
Max. P 0.959014
window6289 window6290

overview

Window 9

Location 11,612,243 – 11,612,349
Length 106
Sequences 6
Columns 107
Reading direction forward
Mean pairwise identity 93.92
Mean single sequence MFE -22.77
Consensus MFE -19.88
Energy contribution -20.05
Covariance contribution 0.17
Combinations/Pair 1.00
Mean z-score -2.07
Structure conservation index 0.87
SVM decision value 1.50
SVM RNA-class probability 0.959014
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11612243 106 + 22407834
AAUUUAAUAACUU-UGGUCCGGACCCAAUGCAAUUUUGUAAAAUUCUCUAGCAAAAUUAAUUAGUCAAACAAUCCAUCAGGACGCAAACCGGACCUCCUUAACGUGG
.............-.(((((((......(((((((((((...........))))))))..............(((....))).)))..)))))))............ ( -21.60)
>DroSec_CAF1 66948 107 + 1
AAUUUAAUAACUUCCGGUCCGGGCCCAAUGCAAUUUUGUAAAAUUCUCUAGCAAAAUUAAUUAGUCAAACAAUCCAUCAGGACGCAAACCGGACCUCCUUAACGUGG
...............(((((((......(((((((((((...........))))))))..............(((....))).)))..)))))))............ ( -23.00)
>DroSim_CAF1 70871 106 + 1
AAUUUAAUAACUU-UGGUCCGGGCCCAAUGCAAUUUUGUAAAAUUCUCUAGCAAAAUUAAUUAGUCAAACAAUCCAUCAGGACGCAAACCGGACCUCCUUAACGUGG
.............-.(((((((......(((((((((((...........))))))))..............(((....))).)))..)))))))............ ( -22.70)
>DroEre_CAF1 97624 106 + 1
AAUUUAAUAACUU-UGGUCCGGGCCAAAUGCAAUUUUGUAAAAUUCUCUAGCAAAAUUAAUUAGUCAAACAAUCCAUCAGGACGCAAACCGGACCGCCUUAACGUGG
.............-.(((((((......(((((((((((...........))))))))..............(((....))).)))..)))))))............ ( -23.20)
>DroYak_CAF1 69177 106 + 1
AAUUUAAUAACUU-UGGUCCGGGCCCAAUGCAAUUUUGUAAAAUUCUCUAGCAAAAUUAAUUAGUCAAACAAUCCAUCAGGACGCAAACCGGACCUCCUCAAUGAGG
.............-.(((((((......(((((((((((...........))))))))..............(((....))).)))..))))))).((((...)))) ( -24.90)
>DroAna_CAF1 79995 97 + 1
AAUUUAAUAACUU-UGGUCCGGGCCAAAUGCAAUUUUGUGAAAUUUUCUAGCAAAAUUAAUUAGUCAAACAAUCCAUCAGGA------CCGGAC---CUUAACGUGG
.............-.(((((((.........((((((((...........))))))))..............(((....)))------))))))---)......... ( -21.20)
>consensus
AAUUUAAUAACUU_UGGUCCGGGCCCAAUGCAAUUUUGUAAAAUUCUCUAGCAAAAUUAAUUAGUCAAACAAUCCAUCAGGACGCAAACCGGACCUCCUUAACGUGG
...............(((((((.........((((((((...........))))))))..............(((....)))......)))))))............ (-19.88 = -20.05 +   0.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 11,612,243 – 11,612,349
Length 106
Sequences 6
Columns 107
Reading direction reverse
Mean pairwise identity 93.92
Mean single sequence MFE -26.60
Consensus MFE -23.03
Energy contribution -23.87
Covariance contribution 0.83
Combinations/Pair 1.00
Mean z-score -1.49
Structure conservation index 0.87
SVM decision value 0.25
SVM RNA-class probability 0.651039
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11612243 106 - 22407834
CCACGUUAAGGAGGUCCGGUUUGCGUCCUGAUGGAUUGUUUGACUAAUUAAUUUUGCUAGAGAAUUUUACAAAAUUGCAUUGGGUCCGGACCA-AAGUUAUUAAAUU
............(((((((.....((((....)))).......(((((((((((((.((((....)))))))))))).)))))..))))))).-............. ( -26.30)
>DroSec_CAF1 66948 107 - 1
CCACGUUAAGGAGGUCCGGUUUGCGUCCUGAUGGAUUGUUUGACUAAUUAAUUUUGCUAGAGAAUUUUACAAAAUUGCAUUGGGCCCGGACCGGAAGUUAUUAAAUU
.....((((.((..(((((((((.(.((..((((((((......)))))(((((((.((((....))))))))))).)))..)).))))))))))..)).))))... ( -28.00)
>DroSim_CAF1 70871 106 - 1
CCACGUUAAGGAGGUCCGGUUUGCGUCCUGAUGGAUUGUUUGACUAAUUAAUUUUGCUAGAGAAUUUUACAAAAUUGCAUUGGGCCCGGACCA-AAGUUAUUAAAUU
............(((((((...((((((....)))).......(((((((((((((.((((....)))))))))))).)))))))))))))).-............. ( -27.50)
>DroEre_CAF1 97624 106 - 1
CCACGUUAAGGCGGUCCGGUUUGCGUCCUGAUGGAUUGUUUGACUAAUUAAUUUUGCUAGAGAAUUUUACAAAAUUGCAUUUGGCCCGGACCA-AAGUUAUUAAAUU
............(((((((.....((((....)))).......((((.((((((((.((((....))))))))))))...)))).))))))).-............. ( -23.70)
>DroYak_CAF1 69177 106 - 1
CCUCAUUGAGGAGGUCCGGUUUGCGUCCUGAUGGAUUGUUUGACUAAUUAAUUUUGCUAGAGAAUUUUACAAAAUUGCAUUGGGCCCGGACCA-AAGUUAUUAAAUU
((((...)))).(((((((...((((((....)))).......(((((((((((((.((((....)))))))))))).)))))))))))))).-............. ( -30.70)
>DroAna_CAF1 79995 97 - 1
CCACGUUAAG---GUCCGG------UCCUGAUGGAUUGUUUGACUAAUUAAUUUUGCUAGAAAAUUUCACAAAAUUGCAUUUGGCCCGGACCA-AAGUUAUUAAAUU
.........(---((((((------.((.((((.(...((((.......((((((.....))))))...))))..).)))).)).))))))).-............. ( -23.40)
>consensus
CCACGUUAAGGAGGUCCGGUUUGCGUCCUGAUGGAUUGUUUGACUAAUUAAUUUUGCUAGAGAAUUUUACAAAAUUGCAUUGGGCCCGGACCA_AAGUUAUUAAAUU
............(((((((.....((((....)))).......(((((((((((((.((((....)))))))))))).)))))..)))))))............... (-23.03 = -23.87 +   0.83)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:06:34 2006