Locus 512

Sequence ID	3L_DroMel_CAF1
Location	1,513,711 – 1,513,806
Length	95
Max. P	0.626060

overview

Window 7

Location	1,513,711 – 1,513,806
Length	95
Sequences	6
Columns	95
Reading direction	forward
Mean pairwise identity	80.28
Mean single sequence MFE	-28.72
Consensus MFE	-18.01
Energy contribution	-20.15
Covariance contribution	2.14
Combinations/Pair	1.17
Mean z-score	-1.45
Structure conservation index	0.63
SVM decision value	-0.02
SVM RNA-class probability	0.521791
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1513711 95 + 23771897
ACCAGCACCAGGCACUCCUAGUAUGGCCCAAAAAUGUCCGUCUGGAAUCAGGCGGCGCACAUACACGAAGUGCACUACGAGCAGAACAAACAGCA
....((.(.(((((((.(..(((((((........(.(((((((....)))))))))).)))))..).))))).))..).))............. ( -24.30)
>DroSec_CAF1 18749 95 + 1
ACCAGCACCAGGCACUCCUAGUAUGGCCCAGAAAUGUCCGUCUGGCAGCAGGCGGCGCACAUACACGAAGUGCACCACGAGCAGGACAAACAGCA
....((.....(((((.(..(((((((.((....)).(((((((....))))))).)).)))))..).))))).((.......)).......)). ( -28.40)
>DroSim_CAF1 19255 95 + 1
ACGAGCACCAGGCACUCCUAGUAUGGCCCAGAAAUGUCCGUCUGGCAUCAGGCGGCGCACAUACACGAAGUGCACCACGAGCAGGACAAACAGCA
....((.....(((((.(..(((((((.((....)).(((((((....))))))).)).)))))..).))))).((.......)).......)). ( -28.20)
>DroEre_CAF1 20301 95 + 1
GUCAGCACCUGGCACUCCCAGUAUGGCCCAGAAAUGUCCGUCUGGCAUCAGGCGGCGCACAUACAGGAAGUGCACCACAAGCAGGGCAAUCAGCA
....((.(((((((((.((.(((((((.((....)).(((((((....))))))).)).))))).)).)))))........))))))........ ( -35.10)
>DroYak_CAF1 18484 95 + 1
GUCGGCACCUGGCACUCCUAGUAUGGCCCAGAAAUGUCCGUCUGGCAUCAGGCGGCGCACAUACACGAAGUGCACCACAAGCAGGGCAACCAGCA
((.((......(((((.(..(((((((.((....)).(((((((....))))))).)).)))))..).))))).))))..((.((....)).)). ( -32.10)
>DroAna_CAF1 19727 95 + 1
AUCGGCUCCUGGUAGUCCCAAGGCUGCCCAAAUCUGGGAGCUCUUCAUUAGCCGGCGCACGUAAAAAAAAUGCAAAAUAAGCAAAGUGAGAAUAA
...((((((((((((((....))))))).......))))))).((((((.((....))............(((.......))).))))))..... ( -24.21)
>consensus
ACCAGCACCAGGCACUCCUAGUAUGGCCCAGAAAUGUCCGUCUGGCAUCAGGCGGCGCACAUACACGAAGUGCACCACAAGCAGGACAAACAGCA
....((.....(((((....(((((((.((....)).(((((((....))))))).)).)))))....))))).......))............. (-18.01 = -20.15 +   2.14)

alignment

secondary structure

dotplot

Window 8

Location	1,513,711 – 1,513,806
Length	95
Sequences	6
Columns	95
Reading direction	reverse
Mean pairwise identity	80.28
Mean single sequence MFE	-34.55
Consensus MFE	-23.58
Energy contribution	-24.17
Covariance contribution	0.59
Combinations/Pair	1.31
Mean z-score	-1.38
Structure conservation index	0.68
SVM decision value	0.19
SVM RNA-class probability	0.626060
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1513711 95 - 23771897
UGCUGUUUGUUCUGCUCGUAGUGCACUUCGUGUAUGUGCGCCGCCUGAUUCCAGACGGACAUUUUUGGGCCAUACUAGGAGUGCCUGGUGCUGGU
(((((((((.....(..(..((((((.........))))))..)..)....))))))).)).......(((((((((((....))))))).)))) ( -31.00)
>DroSec_CAF1 18749 95 - 1
UGCUGUUUGUCCUGCUCGUGGUGCACUUCGUGUAUGUGCGCCGCCUGCUGCCAGACGGACAUUUCUGGGCCAUACUAGGAGUGCCUGGUGCUGGU
(((((((((.(..((..(((((((((.........)))))))))..)).).))))))).)).......(((((((((((....))))))).)))) ( -39.80)
>DroSim_CAF1 19255 95 - 1
UGCUGUUUGUCCUGCUCGUGGUGCACUUCGUGUAUGUGCGCCGCCUGAUGCCAGACGGACAUUUCUGGGCCAUACUAGGAGUGCCUGGUGCUCGU
...((((((((..(((((((((((((.........)))))))))..)).))..)))))))).....((((...((((((....)))))))))).. ( -38.20)
>DroEre_CAF1 20301 95 - 1
UGCUGAUUGCCCUGCUUGUGGUGCACUUCCUGUAUGUGCGCCGCCUGAUGCCAGACGGACAUUUCUGGGCCAUACUGGGAGUGCCAGGUGCUGAC
........((((((........((((((((.(((((.((.(((...((((((....)).))))..)))))))))).)))))))))))).)).... ( -36.50)
>DroYak_CAF1 18484 95 - 1
UGCUGGUUGCCCUGCUUGUGGUGCACUUCGUGUAUGUGCGCCGCCUGAUGCCAGACGGACAUUUCUGGGCCAUACUAGGAGUGCCAGGUGCCGAC
...((((...(((....(((((((((.........)))))))))(((....)))..((.(((((((((......)))))))))))))).)))).. ( -36.50)
>DroAna_CAF1 19727 95 - 1
UUAUUCUCACUUUGCUUAUUUUGCAUUUUUUUUACGUGCGCCGGCUAAUGAAGAGCUCCCAGAUUUGGGCAGCCUUGGGACUACCAGGAGCCGAU
......................((((.........))))..(((((........((((((......))).)))(((((.....)))))))))).. ( -25.30)
>consensus
UGCUGUUUGCCCUGCUCGUGGUGCACUUCGUGUAUGUGCGCCGCCUGAUGCCAGACGGACAUUUCUGGGCCAUACUAGGAGUGCCAGGUGCUGAU
..(((((((.....(..(((((((((.........)))))))))..)....))))))).(((((((((......)))))))))............ (-23.58 = -24.17 +   0.59)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:43:55 2006