Locus 74

Sequence ID	X_DroMel_CAF1
Location	320,588 – 320,682
Length	94
Max. P	0.999913

overview

Window 3

Location	320,588 – 320,682
Length	94
Sequences	5
Columns	100
Reading direction	forward
Mean pairwise identity	90.66
Mean single sequence MFE	-21.09
Consensus MFE	-16.46
Energy contribution	-16.62
Covariance contribution	0.16
Combinations/Pair	1.05
Mean z-score	-2.86
Structure conservation index	0.78
SVM decision value	2.20
SVM RNA-class probability	0.990102
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 320588 94 + 22224390
UUUGCACGAUAUUUACUCACCCUCACUU------UUACUUGGCGCUAUACUCUCCUGCCAAUUGUGCUCAGGACUUCAUUGUCCUGUGCUUACGUGUUCU
...(((((....................------....((((((...........))))))....((.((((((......)))))).))...)))))... ( -24.50)
>DroSec_CAF1 63566 94 + 1
UUUGCAGGAUAUUUUGUCACCCUCACUC------UUACUUGGCGCUAUACUCUCCUGCCAAUUGUACCCAGGACUUCAUUGUCCUGCGCUUACGUAUUCU
...(((((((((..(((((.........------.....)))))..)))...)))))).....(((.(((((((......)))))).)..)))....... ( -21.94)
>DroSim_CAF1 84217 94 + 1
UUUGCAGGAUAUUUUGUCACCCUCACUC------UUACUCGGCGCUAUACUCUCCUGCCAAUUGUACCCAGGACUUCAUUGUCCUGCGCUUACGUAUUCU
...(((((((((..((((..........------......))))..)))...)))))).....(((.(((((((......)))))).)..)))....... ( -20.99)
>DroEre_CAF1 64039 94 + 1
UUUGCAGGAUAUUUUCUCACCCUCACUC------UUACUUGGCGCUACACUCUCCUGCCAAUUGUCCCCAGGACUUCAUUGUCCUGUGCCUACGUGUUCU
...((((((((.................------....((((((...........))))))..((((...)))).....))))))))............. ( -19.20)
>DroYak_CAF1 84553 100 + 1
UUUGCAGGAUAUUUUCCCACCCUCACUCUUACUCUUACUUGGCGCUAUGCUCUCCUGCCAAUUGUCCCCAGGACCUCAUUGUCCUGUGCUUACGUGUUCU
...((((((((...........................((((((...........))))))..((((...)))).....))))))))............. ( -18.80)
>consensus
UUUGCAGGAUAUUUUCUCACCCUCACUC______UUACUUGGCGCUAUACUCUCCUGCCAAUUGUACCCAGGACUUCAUUGUCCUGUGCUUACGUGUUCU
.....(((((((..........................((((((...........)))))).......((((((......)))))).......))))))) (-16.46 = -16.62 +   0.16)

alignment

secondary structure

dotplot

Window 4

Location	320,588 – 320,682
Length	94
Sequences	5
Columns	100
Reading direction	reverse
Mean pairwise identity	90.66
Mean single sequence MFE	-26.54
Consensus MFE	-23.92
Energy contribution	-24.44
Covariance contribution	0.52
Combinations/Pair	1.05
Mean z-score	-3.02
Structure conservation index	0.90
SVM decision value	4.52
SVM RNA-class probability	0.999913
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 320588 94 - 22224390
AGAACACGUAAGCACAGGACAAUGAAGUCCUGAGCACAAUUGGCAGGAGAGUAUAGCGCCAAGUAA------AAGUGAGGGUGAGUAAAUAUCGUGCAAA
...........((.((((((......)))))).)).......(((.((........((((...((.------...))..))))........)).)))... ( -24.29)
>DroSec_CAF1 63566 94 - 1
AGAAUACGUAAGCGCAGGACAAUGAAGUCCUGGGUACAAUUGGCAGGAGAGUAUAGCGCCAAGUAA------GAGUGAGGGUGACAAAAUAUCCUGCAAA
...........((.((((((......)))))).)).......((((((........((((...((.------...))..))))........))))))... ( -28.49)
>DroSim_CAF1 84217 94 - 1
AGAAUACGUAAGCGCAGGACAAUGAAGUCCUGGGUACAAUUGGCAGGAGAGUAUAGCGCCGAGUAA------GAGUGAGGGUGACAAAAUAUCCUGCAAA
...........((.((((((......)))))).)).......((((((........((((......------.......))))........))))))... ( -28.41)
>DroEre_CAF1 64039 94 - 1
AGAACACGUAGGCACAGGACAAUGAAGUCCUGGGGACAAUUGGCAGGAGAGUGUAGCGCCAAGUAA------GAGUGAGGGUGAGAAAAUAUCCUGCAAA
.......((.....((((((......))))))...)).....((((((.....(..((((...((.------...))..))))..).....))))))... ( -26.30)
>DroYak_CAF1 84553 100 - 1
AGAACACGUAAGCACAGGACAAUGAGGUCCUGGGGACAAUUGGCAGGAGAGCAUAGCGCCAAGUAAGAGUAAGAGUGAGGGUGGGAAAAUAUCCUGCAAA
....(((.((..(.((((((......)))))).......(((((.............)))))....)..))...)))...(..(((.....)))..)... ( -25.22)
>consensus
AGAACACGUAAGCACAGGACAAUGAAGUCCUGGGGACAAUUGGCAGGAGAGUAUAGCGCCAAGUAA______GAGUGAGGGUGAGAAAAUAUCCUGCAAA
.......((..((.((((((......)))))).)))).....((((((........((((...................))))........))))))... (-23.92 = -24.44 +   0.52)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:33:12 2006