Locus 6622

Sequence ID	2L_DroMel_CAF1
Location	18,614,081 – 18,614,237
Length	156
Max. P	0.806784

overview

Window 4

Location	18,614,081 – 18,614,197
Length	116
Sequences	4
Columns	116
Reading direction	forward
Mean pairwise identity	97.70
Mean single sequence MFE	-31.85
Consensus MFE	-28.67
Energy contribution	-29.68
Covariance contribution	1.00
Combinations/Pair	1.00
Mean z-score	-2.17
Structure conservation index	0.90
SVM decision value	0.63
SVM RNA-class probability	0.806784
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18614081 116 + 22407834
GUGCCGGCAAUAAAACGAAAUUGUUUUGAAUUAUUGAGAUCUGGCAGAAAGAGCGGCCUGUAACCGGAUGGUAACUUUCUGGUUUGGGCUUUUUUUCAUUUUGUUUAAAUAUAAUU
.((((((((((((..((((.....))))..))))))....))))))(((((((.((((((.(((((((.(....)..))))))))))))))))))))................... ( -32.20)
>DroSec_CAF1 91463 115 + 1
GUGCCGGCAAUAAAACGAAAUUGUUUUGAAUUAUUGAGAUCUGGCAGAAAGAGCGGCCUGUAACCGGAUGGUACCUUUCUGGUUUGGGCUUU-UUUCAUUUUGUUUAAAUAUAAUU
.((((((((((((..((((.....))))..))))))....))))))((((((..((((((.(((((((.(....)..)))))))))))))))-))))................... ( -31.60)
>DroSim_CAF1 92371 115 + 1
GUGCCGGCAAUAAAACGAAAUUGUUUUGAAUUAUUGAGAUCUGGCAGAAAGAGCGGCCUGUAACCGGAUGGUACCUUUCUGGUUUGGGCUUU-UUUCAUUUUGUUUAAAUAUAAUU
.((((((((((((..((((.....))))..))))))....))))))((((((..((((((.(((((((.(....)..)))))))))))))))-))))................... ( -31.60)
>DroEre_CAF1 90635 116 + 1
GUGCCGGCAAUAAAACGAAAUUGUUUUGAAUUAUUGAGAUCUGGCAGAAAGAGCGGCCUGUAACCGGAUGGUACCUUCCAGGUUUGGGCUUUUUUUCAUUUUGUUUGAAUAUAAUU
.((((((((((((..((((.....))))..))))))....))))))(((((((.((((((.(((((((.(....).))).)))))))))))))))))................... ( -32.00)
>consensus
GUGCCGGCAAUAAAACGAAAUUGUUUUGAAUUAUUGAGAUCUGGCAGAAAGAGCGGCCUGUAACCGGAUGGUACCUUUCUGGUUUGGGCUUU_UUUCAUUUUGUUUAAAUAUAAUU
.((((((((((((..((((.....))))..))))))....))))))(((((((.((((((.(((((((.((...)).))))))))))))))))))))................... (-28.67 = -29.68 +   1.00)

alignment

secondary structure

dotplot

Window 5

Location	18,614,121 – 18,614,237
Length	116
Sequences	4
Columns	116
Reading direction	forward
Mean pairwise identity	95.54
Mean single sequence MFE	-35.27
Consensus MFE	-31.44
Energy contribution	-32.25
Covariance contribution	0.81
Combinations/Pair	1.02
Mean z-score	-1.85
Structure conservation index	0.89
SVM decision value	0.59
SVM RNA-class probability	0.792847
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18614121 116 + 22407834
CUGGCAGAAAGAGCGGCCUGUAACCGGAUGGUAACUUUCUGGUUUGGGCUUUUUUUCAUUUUGUUUAAAUAUAAUUUAUAUUUGGCGCAUAUAUAGCCAGGAUCACGGGACCCGGA
(((((.(((((((.((((((.(((((((.(....)..))))))))))))))))))))....((((((((((((...))))))))).)))......))))).....(((...))).. ( -35.30)
>DroSec_CAF1 91503 115 + 1
CUGGCAGAAAGAGCGGCCUGUAACCGGAUGGUACCUUUCUGGUUUGGGCUUU-UUUCAUUUUGUUUAAAUAUAAUUUAUAUUUGGCGCAUUUAUAGCCAGGACCUCGGGACCCGGA
(((((.((((((..((((((.(((((((.(....)..)))))))))))))))-))))....((((((((((((...))))))))).)))......)))))....((((...)))). ( -34.80)
>DroSim_CAF1 92411 115 + 1
CUGGCAGAAAGAGCGGCCUGUAACCGGAUGGUACCUUUCUGGUUUGGGCUUU-UUUCAUUUUGUUUAAAUAUAAUUUAUAUUUGGCGCAUUUAUAGCCAGGACUUCGGGACCCGGA
(((((.((((((..((((((.(((((((.(....)..)))))))))))))))-))))....((((((((((((...))))))))).)))......)))))...(((((...))))) ( -35.30)
>DroEre_CAF1 90675 116 + 1
CUGGCAGAAAGAGCGGCCUGUAACCGGAUGGUACCUUCCAGGUUUGGGCUUUUUUUCAUUUUGUUUGAAUAUAAUUUAUAUUUGGUGCAUUUAUAGCCAGGACCUCGGGACCCGGA
(((((.(((((((.((((((.(((((((.(....).))).)))))))))))))))))....((((..((((((...))))))..).)))......)))))....((((...)))). ( -35.70)
>consensus
CUGGCAGAAAGAGCGGCCUGUAACCGGAUGGUACCUUUCUGGUUUGGGCUUU_UUUCAUUUUGUUUAAAUAUAAUUUAUAUUUGGCGCAUUUAUAGCCAGGACCUCGGGACCCGGA
(((((.(((((((.((((((.(((((((.((...)).))))))))))))))))))))....((((((((((((...))))))))).)))......))))).....(((...))).. (-31.44 = -32.25 +   0.81)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:15:46 2006