Locus 3348

Sequence ID X_DroMel_CAF1
Location 8,951,277 – 8,951,380
Length 103
Max. P 0.979013
window5481 window5482

overview

Window 1

Location 8,951,277 – 8,951,380
Length 103
Sequences 3
Columns 103
Reading direction forward
Mean pairwise identity 93.20
Mean single sequence MFE -25.07
Consensus MFE -24.28
Energy contribution -24.17
Covariance contribution -0.11
Combinations/Pair 1.04
Mean z-score -2.48
Structure conservation index 0.97
SVM decision value 1.83
SVM RNA-class probability 0.979013
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8951277 103 + 22224390
AACGUUUAACUUAAUGUGGUGGAAAUUGAAGCCUUCUCGCUGUACAAUCACCCACAUAUAAGAAGCUAAUGGUUAUUUCCCUUACGAGGACACCAUUACCAAC
.........((((((((((.(...((((.(((......)))...))))..))))))).))))..(.(((((((....((((....).))).))))))).)... ( -22.20)
>DroSec_CAF1 1550 103 + 1
AACGUUUAACAUAAUGUGGUGGAAAUUGAAGCCUUCUAGCUGUACCAUCAGCCACAUAUAUGAAGCUAAUGGUUAUUUCCUUUACGAGGAUACCAUUACCAAC
.........(((((((((((.((......(((......)))......)).))))))).))))..(.(((((((....(((((...))))).))))))).)... ( -27.20)
>DroSim_CAF1 1552 103 + 1
AAAUUAUAACAUAAUGUGGUGGAAAUUGAAGCCUUCUAGCUGUACGAUCAGCCACAUAUAUGAAGCUAAUGGUUAUUUCCUUUACGAGGACACCAUUACCAAC
.........(((((((((((.((......(((......)))......)).))))))).))))..(.(((((((....(((((...))))).))))))).)... ( -25.80)
>consensus
AACGUUUAACAUAAUGUGGUGGAAAUUGAAGCCUUCUAGCUGUACAAUCAGCCACAUAUAUGAAGCUAAUGGUUAUUUCCUUUACGAGGACACCAUUACCAAC
.........((((((((((..((......(((......)))......))..)))))).))))..(.(((((((....((((.....)))).))))))).)... (-24.28 = -24.17 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 8,951,277 – 8,951,380
Length 103
Sequences 3
Columns 103
Reading direction reverse
Mean pairwise identity 93.20
Mean single sequence MFE -27.90
Consensus MFE -25.86
Energy contribution -25.20
Covariance contribution -0.66
Combinations/Pair 1.07
Mean z-score -2.24
Structure conservation index 0.93
SVM decision value 1.09
SVM RNA-class probability 0.913643
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8951277 103 - 22224390
GUUGGUAAUGGUGUCCUCGUAAGGGAAAUAACCAUUAGCUUCUUAUAUGUGGGUGAUUGUACAGCGAGAAGGCUUCAAUUUCCACCACAUUAAGUUAAACGUU
((((.(((((((.(((.(....))))....))))))).)..((((.((((((..(((((...(((......))).)))))....))))))))))...)))... ( -30.50)
>DroSec_CAF1 1550 103 - 1
GUUGGUAAUGGUAUCCUCGUAAAGGAAAUAACCAUUAGCUUCAUAUAUGUGGCUGAUGGUACAGCUAGAAGGCUUCAAUUUCCACCACAUUAUGUUAAACGUU
..((((.((((.....))))...((((((.((((((((((.((....)).))))))))))..((((....))))...))))))))))................ ( -26.80)
>DroSim_CAF1 1552 103 - 1
GUUGGUAAUGGUGUCCUCGUAAAGGAAAUAACCAUUAGCUUCAUAUAUGUGGCUGAUCGUACAGCUAGAAGGCUUCAAUUUCCACCACAUUAUGUUAUAAUUU
...(.(((((((.((((.....))))....))))))).)..((((.((((((..((......((((....))))......))..))))))))))......... ( -26.40)
>consensus
GUUGGUAAUGGUGUCCUCGUAAAGGAAAUAACCAUUAGCUUCAUAUAUGUGGCUGAUCGUACAGCUAGAAGGCUUCAAUUUCCACCACAUUAUGUUAAACGUU
...(.(((((((.((((.....))))....))))))).)..((((.((((((..((......(((......)))......))..))))))))))......... (-25.86 = -25.20 +  -0.66)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:57:07 2006