Locus 9942

Sequence ID	3R_DroMel_CAF1
Location	26,610,570 – 26,610,684
Length	114
Max. P	0.999358

overview

Window 6

Location	26,610,570 – 26,610,684
Length	114
Sequences	5
Columns	114
Reading direction	forward
Mean pairwise identity	97.19
Mean single sequence MFE	-42.30
Consensus MFE	-39.42
Energy contribution	-39.46
Covariance contribution	0.04
Combinations/Pair	1.03
Mean z-score	-1.37
Structure conservation index	0.93
SVM decision value	0.81
SVM RNA-class probability	0.856064
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 26610570 114 + 27905053
GAUCUGCGCUGCAGUCGCUGCUCCAAGCAGUUCAAUCAUCCCACUGAGCUGGUGCAGCACGAGAAGGUGCUUUGUGGCCUGAUCAAGGAGGAGCUGGAGCAGCACUUCCAACAG
((.((((...))))))(((((((((.((..(((.((((..((((...((....))(((((......)))))..))))..))))....)))..)))))))))))........... ( -43.60)
>DroSec_CAF1 194000 114 + 1
GAUCUGCGCUGCAGUCGCUGCUCCAAGCAGUUCAAUCAUCCCACUGAGCUGGUGCAGCACGAGAAGGUGCUUUGUGGCCUGAUCAAGGAGGAGUUGGAGCAGCACUUCCAACAG
((.((((...))))))((((((((((.(..(((.((((..((((...((....))(((((......)))))..))))..))))....)))..)))))))))))........... ( -41.20)
>DroSim_CAF1 197355 114 + 1
GAUCUGCGCUGCAGUCGCUGCUCCAAGCAGUUCAAUCAUCCCACUGAGCUGGUGCAGCACGAGAAGGUGCUUUGUGGCCUGAUCAAGGAGGAGCUGGAGCAGCACUUCCAACAG
((.((((...))))))(((((((((.((..(((.((((..((((...((....))(((((......)))))..))))..))))....)))..)))))))))))........... ( -43.60)
>DroEre_CAF1 208818 114 + 1
GACCUGCGCUGCAGUCGCUGCUCCAAACAGUUCAACCAUCCCACUGAGCUGGUGCAGCACGAGAAGGUGCUUUGCGGCCUGAUCAAGGAGGAGCUGGAGCAGCACUUCCAACAG
(((.(((...))))))(((((((((....((((.....(((...(((...((((((((((......))))..))).)))...))).))).)))))))))))))........... ( -41.60)
>DroYak_CAF1 204427 114 + 1
GAUCUGCGCUGCAGUCGCUGCUCCAAACAAUUCAACCAUCCCACUGAGCUGGUGCAGCACGAGAAGGUGCUUUGUGGCCUGAUCAAGGAGGAGCUGGAGCAGCACUUCCAGCAG
.......((((.(((.(((((((((.....(((.......((((...((....))(((((......)))))..))))(((.....))).)))..))))))))))))..)))).. ( -41.50)
>consensus
GAUCUGCGCUGCAGUCGCUGCUCCAAGCAGUUCAAUCAUCCCACUGAGCUGGUGCAGCACGAGAAGGUGCUUUGUGGCCUGAUCAAGGAGGAGCUGGAGCAGCACUUCCAACAG
((.((((...))))))(((((((((..(((((((..........)))))))..(((((((......)))))......(((.....)))....)))))))))))........... (-39.42 = -39.46 +   0.04)

alignment

secondary structure

dotplot

Window 7

Location	26,610,570 – 26,610,684
Length	114
Sequences	5
Columns	114
Reading direction	reverse
Mean pairwise identity	97.19
Mean single sequence MFE	-44.64
Consensus MFE	-44.44
Energy contribution	-43.72
Covariance contribution	-0.72
Combinations/Pair	1.12
Mean z-score	-2.07
Structure conservation index	1.00
SVM decision value	3.54
SVM RNA-class probability	0.999358
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 26610570 114 - 27905053
CUGUUGGAAGUGCUGCUCCAGCUCCUCCUUGAUCAGGCCACAAAGCACCUUCUCGUGCUGCACCAGCUCAGUGGGAUGAUUGAACUGCUUGGAGCAGCGACUGCAGCGCAGAUC
..((((.(..((((((((((((......(..((((..((((..(((((......)))))((....))...))))..))))..)...)).))))))))))..).))))....... ( -45.80)
>DroSec_CAF1 194000 114 - 1
CUGUUGGAAGUGCUGCUCCAACUCCUCCUUGAUCAGGCCACAAAGCACCUUCUCGUGCUGCACCAGCUCAGUGGGAUGAUUGAACUGCUUGGAGCAGCGACUGCAGCGCAGAUC
..((((.(..(((((((((((.......(..((((..((((..(((((......)))))((....))...))))..))))..).....)))))))))))..).))))....... ( -43.80)
>DroSim_CAF1 197355 114 - 1
CUGUUGGAAGUGCUGCUCCAGCUCCUCCUUGAUCAGGCCACAAAGCACCUUCUCGUGCUGCACCAGCUCAGUGGGAUGAUUGAACUGCUUGGAGCAGCGACUGCAGCGCAGAUC
..((((.(..((((((((((((......(..((((..((((..(((((......)))))((....))...))))..))))..)...)).))))))))))..).))))....... ( -45.80)
>DroEre_CAF1 208818 114 - 1
CUGUUGGAAGUGCUGCUCCAGCUCCUCCUUGAUCAGGCCGCAAAGCACCUUCUCGUGCUGCACCAGCUCAGUGGGAUGGUUGAACUGUUUGGAGCAGCGACUGCAGCGCAGGUC
..((((.(..(((((((((((.......(..((((..((((..(((((......)))))((....))...))))..))))..).....)))))))))))..).))))....... ( -42.50)
>DroYak_CAF1 204427 114 - 1
CUGCUGGAAGUGCUGCUCCAGCUCCUCCUUGAUCAGGCCACAAAGCACCUUCUCGUGCUGCACCAGCUCAGUGGGAUGGUUGAAUUGUUUGGAGCAGCGACUGCAGCGCAGAUC
..((((.(..(((((((((((.......(..((((..((((..(((((......)))))((....))...))))..))))..).....)))))))))))..).))))....... ( -45.30)
>consensus
CUGUUGGAAGUGCUGCUCCAGCUCCUCCUUGAUCAGGCCACAAAGCACCUUCUCGUGCUGCACCAGCUCAGUGGGAUGAUUGAACUGCUUGGAGCAGCGACUGCAGCGCAGAUC
..((((.(..(((((((((((.......(..((((..((((..(((((......)))))((....))...))))..))))..).....)))))))))))..).))))....... (-44.44 = -43.72 +  -0.72)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:45:21 2006