Locus 3610

Sequence ID	2R_DroMel_CAF1
Location	11,989,650 – 11,989,750
Length	100
Max. P	0.775898

overview

Window 9

Location	11,989,650 – 11,989,750
Length	100
Sequences	6
Columns	100
Reading direction	forward
Mean pairwise identity	82.61
Mean single sequence MFE	-26.39
Consensus MFE	-14.90
Energy contribution	-16.93
Covariance contribution	2.03
Combinations/Pair	1.04
Mean z-score	-3.00
Structure conservation index	0.56
SVM decision value	0.54
SVM RNA-class probability	0.775898
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11989650 100 + 20766785
UCAGAUUGGCAGUGUGUCUGUGUGUGAGUAAACAUUGUAGGAAAUUCGCUCUUUUUAUGCUCAUGAAACCUAAUCACACACACCCGCCCACUGCCAAAAG
.....(((((((((.((.(((((((((..........((((..((..((.........))..))....)))).)))))))))...)).)))))))))... ( -31.40)
>DroSec_CAF1 40725 98 + 1
UCAGAUUGGCAGUGUGU--GUGUGUGAGUAAACAUUGUAGGAAAUUCGCUCUUUUUAUGCUCAUGAAACCUAAUCACACACACCCGCCCACUGCCAAAAG
.....(((((((((.((--((((((((..........((((..((..((.........))..))....)))).)))))))))).....)))))))))... ( -31.70)
>DroSim_CAF1 44368 98 + 1
UCAGAUUGGCAGUGUGU--GUGUGUGAGUAAACAUUGUAUGAAAUUCGCUCUUUUUAUGCUCAUGAAACCUAAUCACACACACCCGCCCACUGCCAAAAG
.....(((((((((.((--((((((((.....(((.((((((((........))))))))..)))........)))))))))).....)))))))))... ( -35.42)
>DroEre_CAF1 41069 94 + 1
CCAGAUUGGCAAUGU------GUGUGAGUAAACAUUGUAGGAAAUUCCCUCUUUUUAUGCUCAUGAAACCUAAUCACACACACCCGCCCACUGCCAACAG
.(((...(((..(((------((((((...........(((......)))..((((((....)))))).....)))))))))...)))..)))....... ( -22.00)
>DroYak_CAF1 41571 94 + 1
UCAGAUUGGCAGUGU------GUGUGAGUAAACAUUGUAGGAAAUUCCCUCUUUUUAUGCUCAUGAAACCUAAUCACACACACCCGCCCACUGCCAACAG
.(((...(((.((((------((((((...........(((......)))..((((((....)))))).....))))))))))..)))..)))....... ( -25.30)
>DroAna_CAF1 44206 76 + 1
------UGGAAAUGUAU------UU--AUAUACAUUGUAGAAAAUUCCCACAUUUUGUGCUGAUGGUACCUAAUCACACCUACG----------CAAAAU
------....(((((((------..--..)))))))(((((((((......)))))(((.((((........))))))))))).----------...... ( -12.50)
>consensus
UCAGAUUGGCAGUGUGU____GUGUGAGUAAACAUUGUAGGAAAUUCCCUCUUUUUAUGCUCAUGAAACCUAAUCACACACACCCGCCCACUGCCAAAAG
.....(((((((((.......((((((.....(((.(((.((((........)))).)))..)))........)))))).........)))))))))... (-14.90 = -16.93 +   2.03)

alignment

secondary structure

dotplot

Window 0

Location	11,989,650 – 11,989,750
Length	100
Sequences	6
Columns	100
Reading direction	reverse
Mean pairwise identity	82.61
Mean single sequence MFE	-28.45
Consensus MFE	-16.82
Energy contribution	-18.77
Covariance contribution	1.95
Combinations/Pair	1.12
Mean z-score	-2.41
Structure conservation index	0.59
SVM decision value	0.20
SVM RNA-class probability	0.631656
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11989650 100 - 20766785
CUUUUGGCAGUGGGCGGGUGUGUGUGAUUAGGUUUCAUGAGCAUAAAAAGAGCGAAUUUCCUACAAUGUUUACUCACACACAGACACACUGCCAAUCUGA
...(((((((((...(..(((((((((.((((....((..((.........))..))..))))....(....))))))))))..).)))))))))..... ( -31.50)
>DroSec_CAF1 40725 98 - 1
CUUUUGGCAGUGGGCGGGUGUGUGUGAUUAGGUUUCAUGAGCAUAAAAAGAGCGAAUUUCCUACAAUGUUUACUCACACAC--ACACACUGCCAAUCUGA
...(((((((((.....((((((((((.((((....((..((.........))..))..))))....(....)))))))))--)).)))))))))..... ( -32.90)
>DroSim_CAF1 44368 98 - 1
CUUUUGGCAGUGGGCGGGUGUGUGUGAUUAGGUUUCAUGAGCAUAAAAAGAGCGAAUUUCAUACAAUGUUUACUCACACAC--ACACACUGCCAAUCUGA
...(((((((((.....((((((((((...(....).(((((((.....(((.....))).....))))))).))))))))--)).)))))))))..... ( -32.70)
>DroEre_CAF1 41069 94 - 1
CUGUUGGCAGUGGGCGGGUGUGUGUGAUUAGGUUUCAUGAGCAUAAAAAGAGGGAAUUUCCUACAAUGUUUACUCACAC------ACAUUGCCAAUCUGG
.......(((..(((((.(((((((((...(....).(((((((......((((....))))...))))))).))))))------))))))))...))). ( -28.20)
>DroYak_CAF1 41571 94 - 1
CUGUUGGCAGUGGGCGGGUGUGUGUGAUUAGGUUUCAUGAGCAUAAAAAGAGGGAAUUUCCUACAAUGUUUACUCACAC------ACACUGCCAAUCUGA
.......(((..(((((.(((((((((...(....).(((((((......((((....))))...))))))).))))))------))))))))...))). ( -30.40)
>DroAna_CAF1 44206 76 - 1
AUUUUG----------CGUAGGUGUGAUUAGGUACCAUCAGCACAAAAUGUGGGAAUUUUCUACAAUGUAUAU--AA------AUACAUUUCCA------
((((((----------.((.((((.(........))))).)).))))))((((((...))))))(((((((..--..------)))))))....------ ( -15.00)
>consensus
CUUUUGGCAGUGGGCGGGUGUGUGUGAUUAGGUUUCAUGAGCAUAAAAAGAGCGAAUUUCCUACAAUGUUUACUCACAC____ACACACUGCCAAUCUGA
...(((((((((.....((((.(((((.......))))).)))).....(((..(((..........)))..)))...........)))))))))..... (-16.82 = -18.77 +   1.95)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:59:50 2006