Locus 6648

Sequence ID 3L_DroMel_CAF1
Location 17,689,750 – 17,689,858
Length 108
Max. P 0.935483
window10809 window10810

overview

Window 9

Location 17,689,750 – 17,689,858
Length 108
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 79.76
Mean single sequence MFE -27.93
Consensus MFE -17.66
Energy contribution -18.25
Covariance contribution 0.59
Combinations/Pair 1.28
Mean z-score -1.94
Structure conservation index 0.63
SVM decision value 0.71
SVM RNA-class probability 0.830498
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17689750 108 + 23771897
------------UGUCAUUUGAGGAAGAAGAAUCUUCUACAACACGCUGAAAAGUUUUCUUUUUGUGCUUGACUUUAACUUUAAGAAUCAGGCCCUUUGAGAACUGAUUCUUUAAGCUUU
------------.((((.(((.((((((....)))))).)))...(((((((((....))))))).)).)))).....(((.(((((((((..(......)..))))))))).))).... ( -27.70)
>DroSec_CAF1 71914 108 + 1
------------UGUCAUUUGAGGAAGAUGAAUCUUCCACAACCCGCUGAAAAGUUUUCUUUUUGUGUUUGACCUUAACUUUAAGGAUCAGGCCCUUCGAGUACUGAUUCUUUAAGCUUU
------------.((((.(((.((((((....)))))).)))..(((.((((((....)))))))))..)))).....(((.(((((((((..(......)..))))))))).))).... ( -28.20)
>DroSim_CAF1 66962 108 + 1
------------UGUCAUUUGAGGAAGAUGAAUCUUCCACAACCCGUUGAAAAGUUUUCUUUUUGUGUUUGACCUUAACUUUAAGGAUCAGGCCCUUCGAGUACUGAUUCUUUAAGCUUU
------------.((((.(((.((((((....)))))).)))......((((((....)))))).....)))).....(((.(((((((((..(......)..))))))))).))).... ( -26.20)
>DroEre_CAF1 61854 108 + 1
------------UGUCAGUUGAGGAAGACGAAUCUUCCACAACUCGCUGAAAGGUUUUCUUUUUGUGUUUGACUUUGACCUUAAGGAUCAGGCCCUUCGAGUACUGAUUCUUCAAGCUCU
------------.((((((((.((((((....)))))).)))).(((.(((((.....))))).)))..))))...((.((((((((((((..(......)..))))))))).))).)). ( -32.80)
>DroYak_CAF1 47997 108 + 1
------------UAUCAGCUGACGAAGAUGAGUCUUCCACAACUCUCUGAAAGGUUUUCUUUUUGUGUUUGACUUUGACCUUAAGGAUAAGGCCCUUUGAGUACUGAUUCUUUAGGCUUU
------------....((((...(((((.(((((...(((((....((....))........)))))...)))))....(((((((........))))))).......))))).)))).. ( -20.10)
>DroAna_CAF1 62118 117 + 1
AAUCCAUCAUAAUGUCUUC---GGACGAAGAGCUCUCUAUCACUCGCUGAAGAGCCUUCUUCCUUUGCUUGACUUUGAUCUUCAGGAUUAGGCCCUUGGAGUAGUUGUUCUUCAGGCCCU
(((((........(((...---.)))((((.(((((...(((.....)))))))))))).........................))))).((((..(((((........))))))))).. ( -32.60)
>consensus
____________UGUCAUUUGAGGAAGAUGAAUCUUCCACAACUCGCUGAAAAGUUUUCUUUUUGUGUUUGACUUUAACCUUAAGGAUCAGGCCCUUCGAGUACUGAUUCUUUAAGCUUU
.............((((.....((((((....))))))..........((((((....)))))).....)))).....(((.(((((((((..(......)..))))))))).))).... (-17.66 = -18.25 +   0.59)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 17,689,750 – 17,689,858
Length 108
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 79.76
Mean single sequence MFE -28.40
Consensus MFE -15.35
Energy contribution -16.52
Covariance contribution 1.17
Combinations/Pair 1.21
Mean z-score -2.76
Structure conservation index 0.54
SVM decision value 1.24
SVM RNA-class probability 0.935483
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17689750 108 - 23771897
AAAGCUUAAAGAAUCAGUUCUCAAAGGGCCUGAUUCUUAAAGUUAAAGUCAAGCACAAAAAGAAAACUUUUCAGCGUGUUGUAGAAGAUUCUUCUUCCUCAAAUGACA------------
..(((((.(((((((((..((....))..))))))))).)))))...((((.((...(((((....)))))..))...(((..(((((....)))))..))).)))).------------ ( -31.30)
>DroSec_CAF1 71914 108 - 1
AAAGCUUAAAGAAUCAGUACUCGAAGGGCCUGAUCCUUAAAGUUAAGGUCAAACACAAAAAGAAAACUUUUCAGCGGGUUGUGGAAGAUUCAUCUUCCUCAAAUGACA------------
..(((((.(((.(((((..((....))..))))).))).)))))...((((......(((((....))))).......(((.((((((....)))))).))).)))).------------ ( -26.20)
>DroSim_CAF1 66962 108 - 1
AAAGCUUAAAGAAUCAGUACUCGAAGGGCCUGAUCCUUAAAGUUAAGGUCAAACACAAAAAGAAAACUUUUCAACGGGUUGUGGAAGAUUCAUCUUCCUCAAAUGACA------------
..(((((.(((.(((((..((....))..))))).))).)))))...((((......(((((....))))).......(((.((((((....)))))).))).)))).------------ ( -26.20)
>DroEre_CAF1 61854 108 - 1
AGAGCUUGAAGAAUCAGUACUCGAAGGGCCUGAUCCUUAAGGUCAAAGUCAAACACAAAAAGAAAACCUUUCAGCGAGUUGUGGAAGAUUCGUCUUCCUCAACUGACA------------
.((.(((((.((.((((..((....))..)))))).))))).))...(((...(.(..((((.....))))..).)(((((.((((((....)))))).)))))))).------------ ( -31.40)
>DroYak_CAF1 47997 108 - 1
AAAGCCUAAAGAAUCAGUACUCAAAGGGCCUUAUCCUUAAGGUCAAAGUCAAACACAAAAAGAAAACCUUUCAGAGAGUUGUGGAAGACUCAUCUUCGUCAGCUGAUA------------
............((((((...(.((((((((((....)))))))..((((...(((((...(((.....)))......)))))...))))...))).)...)))))).------------ ( -23.70)
>DroAna_CAF1 62118 117 - 1
AGGGCCUGAAGAACAACUACUCCAAGGGCCUAAUCCUGAAGAUCAAAGUCAAGCAAAGGAAGAAGGCUCUUCAGCGAGUGAUAGAGAGCUCUUCGUCC---GAAGACAUUAUGAUGGAUU
.((((((...((........))...))))))(((((....(((....))).......(((.(((((((((..(........)..))))).)))).)))---..............))))) ( -31.60)
>consensus
AAAGCUUAAAGAAUCAGUACUCGAAGGGCCUGAUCCUUAAAGUCAAAGUCAAACACAAAAAGAAAACUUUUCAGCGAGUUGUGGAAGAUUCAUCUUCCUCAAAUGACA____________
..(((((.(((.(((((..((....))..))))).))).)))))...((((..(((((...((((...))))......)))))(((((....)))))......))))............. (-15.35 = -16.52 +   1.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:26:27 2006