Locus 8177

Sequence ID 3L_DroMel_CAF1
Location 21,523,016 – 21,523,125
Length 109
Max. P 0.900176
window13379 window13380

overview

Window 9

Location 21,523,016 – 21,523,125
Length 109
Sequences 4
Columns 118
Reading direction forward
Mean pairwise identity 88.11
Mean single sequence MFE -29.78
Consensus MFE -25.45
Energy contribution -25.57
Covariance contribution 0.12
Combinations/Pair 1.08
Mean z-score -1.92
Structure conservation index 0.85
SVM decision value 1.01
SVM RNA-class probability 0.900176
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21523016 109 + 23771897
GAU--UGU-CAU------CCUUUUCCAUUCAUGUUCUGUAAGCAGGACGAAUGGGAUUAUUCCAACUGGGUGUUCUUUUCCAAAAGAGCGUAUGCUUAUCUAUAACCCUAACCCCAGG
...--...-...------....((((((((..((((((....)))))))))))))).........(((((.(((((((....))))))).((((......))))........))))). ( -29.30)
>DroSec_CAF1 28482 109 + 1
GAU--UGU-CAU------CCUUUUCCAUUCAUGUUCUGUAAGCAGGACGAAUGGGAUUAUUCCGAUUGGGUGUUCUUUUCCAAAUGAGCGUAUGCUUAUCUAUAACACUAACCCCAGG
...--...-...------....((((((((..((((((....)))))))))))))).........(((((.(((.........((((((....))))))..........)))))))). ( -27.71)
>DroSim_CAF1 28586 109 + 1
GAU--UGU-CAU------CCUUUUCCAUUCAUGUUCUGUAAGCAGGACGAAUGGGAUUAUUCCGACUGGGUGUUCUUUUCCAAAAGAGCGUAUGCUUAUCUAUAACACUAACCCCAGG
...--...-...------....((((((((..((((((....)))))))))))))).........(((((.(((((((....))))))).((((......))))........))))). ( -29.30)
>DroYak_CAF1 3577 116 + 1
AAUGUUGUGCAUAGAGUGCCGCUUCCAUUCAUGUUCUGUAUGCAGGACGAAUGGGAUUAUUCCGACUCGGUGUUUU--UUGAAAAGAGCAUAUGCUUAUCUAUAACACUAACCUUUGG
..(((((((((.((((..(((..(((((((..((((((....)))))))))))(((....)))))..)))..))))--.))....((((....))))...)))))))........... ( -32.80)
>consensus
GAU__UGU_CAU______CCUUUUCCAUUCAUGUUCUGUAAGCAGGACGAAUGGGAUUAUUCCGACUGGGUGUUCUUUUCCAAAAGAGCGUAUGCUUAUCUAUAACACUAACCCCAGG
......................((((((((..((((((....)))))))))))))).........(((((.(((...........((((....))))............)))))))). (-25.45 = -25.57 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 21,523,016 – 21,523,125
Length 109
Sequences 4
Columns 118
Reading direction reverse
Mean pairwise identity 88.11
Mean single sequence MFE -27.10
Consensus MFE -19.42
Energy contribution -20.67
Covariance contribution 1.25
Combinations/Pair 1.00
Mean z-score -1.52
Structure conservation index 0.72
SVM decision value 0.04
SVM RNA-class probability 0.554885
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21523016 109 - 23771897
CCUGGGGUUAGGGUUAUAGAUAAGCAUACGCUCUUUUGGAAAAGAACACCCAGUUGGAAUAAUCCCAUUCGUCCUGCUUACAGAACAUGAAUGGAAAAGG------AUG-ACA--AUC
.((((((((.......((((..(((....)))..))))......))).)))))(((..((....((((((((.(((....)))...))))))))......------)).-.))--).. ( -26.02)
>DroSec_CAF1 28482 109 - 1
CCUGGGGUUAGUGUUAUAGAUAAGCAUACGCUCAUUUGGAAAAGAACACCCAAUCGGAAUAAUCCCAUUCGUCCUGCUUACAGAACAUGAAUGGAAAAGG------AUG-ACA--AUC
..(((((((((((((.(((((.(((....))).)))))......)))))((....))..)))))))).(((((((.((..((.....))...))...)))------)))-)..--... ( -28.20)
>DroSim_CAF1 28586 109 - 1
CCUGGGGUUAGUGUUAUAGAUAAGCAUACGCUCUUUUGGAAAAGAACACCCAGUCGGAAUAAUCCCAUUCGUCCUGCUUACAGAACAUGAAUGGAAAAGG------AUG-ACA--AUC
..(((((((((((((.((((..(((....)))..))))......)))))((....))..)))))))).(((((((.((..((.....))...))...)))------)))-)..--... ( -27.60)
>DroYak_CAF1 3577 116 - 1
CCAAAGGUUAGUGUUAUAGAUAAGCAUAUGCUCUUUUCAA--AAAACACCGAGUCGGAAUAAUCCCAUUCGUCCUGCAUACAGAACAUGAAUGGAAGCGGCACUCUAUGCACAACAUU
......(((.((((.(((((...((....(((((.((((.--........((((.(((....))).))))((.(((....))).)).)))).)).))).))..))))))))))))... ( -26.60)
>consensus
CCUGGGGUUAGUGUUAUAGAUAAGCAUACGCUCUUUUGGAAAAGAACACCCAGUCGGAAUAAUCCCAUUCGUCCUGCUUACAGAACAUGAAUGGAAAAGG______AUG_ACA__AUC
.((((((((.......((((..(((....)))..))))......))).)))))...........((((((((.(((....)))...))))))))........................ (-19.42 = -20.67 +   1.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:08:40 2006