Locus 6013

Sequence ID	2L_DroMel_CAF1
Location	16,933,648 – 16,933,744
Length	96
Max. P	0.999433

overview

Window 8

Location	16,933,648 – 16,933,744
Length	96
Sequences	6
Columns	100
Reading direction	forward
Mean pairwise identity	95.62
Mean single sequence MFE	-23.20
Consensus MFE	-19.87
Energy contribution	-19.82
Covariance contribution	-0.05
Combinations/Pair	1.12
Mean z-score	-1.46
Structure conservation index	0.86
SVM decision value	-0.00
SVM RNA-class probability	0.531225
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16933648 96 + 22407834
GUGUGUGUGC----UUGUGUUUGCCUGUGGUUUAUUACGCUGCUCUUGGCAAUUAUAUUUGUUACCCAAUUAGCGUAAAAUUGUGUUUAUUGGCAUACGA
...(((((((----(.(((...((..(..((((..(((((((....((((((......))))))......)))))))))))..))).))).)))))))). ( -23.40)
>DroSec_CAF1 46250 100 + 1
GUGUGUGUGCUUGCUUGUGUUUGCCUGUGGUUUAUUACGCUGCUCUUGGCAAUUAUAUUUGUUACCCAAUUAGCGUAAAAUUGUGUUUAUUGGCAUACGA
...(((((((.....((((.(((((.(..((.......))..)....))))).)))).........((((.((((........)))).))))))))))). ( -22.70)
>DroSim_CAF1 51627 96 + 1
GUAUGUGUGC----UUGUGUUUGCCUGUGGUUUAUUACGCUGCUCUUGGCAAUUAUAUUUGUUACCCAAUUAGCGUAAAAUUGUGUUUAUUGGCAUACGA
...(((((((----(.(((...((..(..((((..(((((((....((((((......))))))......)))))))))))..))).))).)))))))). ( -23.50)
>DroEre_CAF1 49007 96 + 1
GUGUGUGUGC----UUGUGUUUGCCUGUGGUUUAUUACGCUGCUCUUGGCAAUUAUAUUUGUUACCCAAUUAGCGUAAAAUUGUGUUUAUUGGCAUACGA
...(((((((----(.(((...((..(..((((..(((((((....((((((......))))))......)))))))))))..))).))).)))))))). ( -23.40)
>DroYak_CAF1 46245 96 + 1
GUUUGUGUGC----UUGUGUUUGCCUGUGGUUUAUUACGCUGCUCUUGGCAAUUAUAUUUGUUACCCAAUUAGCGUAAAAUUGUGUUUAUUGGCAUACGA
..((((((((----(.(((...((..(..((((..(((((((....((((((......))))))......)))))))))))..))).))).))))))))) ( -23.90)
>DroAna_CAF1 43718 96 + 1
GUGGGCUCGU----GUGUGUUUGUCUGUGGUUUAUUACGCUGCUCUUGGCAAUUAUAUUUGUUACCCAAUUAGCGUAAAAUUGUGUUUAUUGGCAUACGA
......((((----((((...((..((..((((..(((((((....((((((......))))))......)))))))))))..))..))...)))))))) ( -22.30)
>consensus
GUGUGUGUGC____UUGUGUUUGCCUGUGGUUUAUUACGCUGCUCUUGGCAAUUAUAUUUGUUACCCAAUUAGCGUAAAAUUGUGUUUAUUGGCAUACGA
((((((.........((((.(((((.(..((.......))..)....))))).)))).........((((.((((........)))).)))))))))).. (-19.87 = -19.82 +  -0.05)

alignment

secondary structure

dotplot

Window 9

Location	16,933,648 – 16,933,744
Length	96
Sequences	6
Columns	100
Reading direction	reverse
Mean pairwise identity	95.62
Mean single sequence MFE	-16.24
Consensus MFE	-15.67
Energy contribution	-15.83
Covariance contribution	0.17
Combinations/Pair	1.00
Mean z-score	-2.01
Structure conservation index	0.96
SVM decision value	3.60
SVM RNA-class probability	0.999433
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16933648 96 - 22407834
UCGUAUGCCAAUAAACACAAUUUUACGCUAAUUGGGUAACAAAUAUAAUUGCCAAGAGCAGCGUAAUAAACCACAGGCAAACACAA----GCACACACAC
..((.((((.............(((((((..((.(((((.........)))))..))..))))))).........)))).))....----.......... ( -16.95)
>DroSec_CAF1 46250 100 - 1
UCGUAUGCCAAUAAACACAAUUUUACGCUAAUUGGGUAACAAAUAUAAUUGCCAAGAGCAGCGUAAUAAACCACAGGCAAACACAAGCAAGCACACACAC
..((.((((.............(((((((..((.(((((.........)))))..))..))))))).........)))).)).................. ( -16.95)
>DroSim_CAF1 51627 96 - 1
UCGUAUGCCAAUAAACACAAUUUUACGCUAAUUGGGUAACAAAUAUAAUUGCCAAGAGCAGCGUAAUAAACCACAGGCAAACACAA----GCACACAUAC
..((.((((.............(((((((..((.(((((.........)))))..))..))))))).........)))).))....----.......... ( -16.95)
>DroEre_CAF1 49007 96 - 1
UCGUAUGCCAAUAAACACAAUUUUACGCUAAUUGGGUAACAAAUAUAAUUGCCAAGAGCAGCGUAAUAAACCACAGGCAAACACAA----GCACACACAC
..((.((((.............(((((((..((.(((((.........)))))..))..))))))).........)))).))....----.......... ( -16.95)
>DroYak_CAF1 46245 96 - 1
UCGUAUGCCAAUAAACACAAUUUUACGCUAAUUGGGUAACAAAUAUAAUUGCCAAGAGCAGCGUAAUAAACCACAGGCAAACACAA----GCACACAAAC
..((.((((.............(((((((..((.(((((.........)))))..))..))))))).........)))).))....----.......... ( -16.95)
>DroAna_CAF1 43718 96 - 1
UCGUAUGCCAAUAAACACAAUUUUACGCUAAUUGGGUAACAAAUAUAAUUGCCAAGAGCAGCGUAAUAAACCACAGACAAACACAC----ACGAGCCCAC
((((.((...............(((((((..((.(((((.........)))))..))..))))))).........(.....).)).----))))...... ( -12.70)
>consensus
UCGUAUGCCAAUAAACACAAUUUUACGCUAAUUGGGUAACAAAUAUAAUUGCCAAGAGCAGCGUAAUAAACCACAGGCAAACACAA____GCACACACAC
..((.((((.............(((((((..((.(((((.........)))))..))..))))))).........)))).)).................. (-15.67 = -15.83 +   0.17)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:58:50 2006