Locus 3063

Sequence ID	2R_DroMel_CAF1
Location	10,526,957 – 10,527,077
Length	120
Max. P	0.961515

overview

Window 4

Location	10,526,957 – 10,527,077
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	95.75
Mean single sequence MFE	-29.88
Consensus MFE	-24.48
Energy contribution	-24.88
Covariance contribution	0.40
Combinations/Pair	1.06
Mean z-score	-2.21
Structure conservation index	0.82
SVM decision value	1.53
SVM RNA-class probability	0.961515
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10526957 120 + 20766785
AUGUCUAGAUACUCCUUUGUCUGCUUGCUGGCUGGCUGCUUGGUUUUUGCCAGCGAUUUUUAGUUUGUUUGCUGUUGACAUUUAAACACUUGUUUUUUCGCUUACCCAGUCAACGUCGAC
..(((((((((......))))))...(.(((((((.....((((....))))((((......(..((((((.((....))..))))))..)......))))....))))))).)...))) ( -25.90)
>DroSec_CAF1 27794 116 + 1
AUGUCUAGAUACUCCUUUGUCUGCUUGCUG----GCUGCUUGGUUUUUGCCAGCGAUUUUUAGUUUGUUUGCCGUUGACAUUUAAACACUUGUUUUUUCGCUUACCCAGUCAACGGCGAC
.....((((((......)))))).((((((----((............))))))))............(((((((((((....((((....))))....(......).))))))))))). ( -31.70)
>DroSim_CAF1 23978 116 + 1
AUGUCUAGAUACUCCUUUGUCUGCUUGCUG----GCUGCUUGGUUUUUGCCAGAGAUUUUUAGUUUGUUUGCCGUUGACAUUUAAACACUUGUUUUUUCGCUUACCCAGUCAACGGCGAC
..(((((((((......))))).....(((----((............)))))))))...........(((((((((((....((((....))))....(......).))))))))))). ( -27.70)
>DroEre_CAF1 30051 116 + 1
AUGUCUAGAUACUCCUUUGUCUGCUUGCUG----GCUGCUUGGUUUUUGCCAGCGAUUUUUAGUUUGUUUGCCGUUGACAUUUAAACACUUGUUUUUUCGCUUACCCAGUCAACGGCAAC
.....((((((......)))))).((((((----((............))))))))............(((((((((((....((((....))))....(......).))))))))))). ( -32.00)
>DroYak_CAF1 28141 116 + 1
AUGUUUAGAUACUCCUUUGUCUGCUCGCUG----GCAGCUUGGUUUUUGCCAGCGAUUUUUAGUUUGUUUGCCGUUGACAUUUAAACACUUGUUUUUUCGCUUACCCAGUCUACGGCAAC
.....((((((......)))))).((((((----((((........))))))))))............(((((((.(((....((((....))))....(......).))).))))))). ( -32.10)
>consensus
AUGUCUAGAUACUCCUUUGUCUGCUUGCUG____GCUGCUUGGUUUUUGCCAGCGAUUUUUAGUUUGUUUGCCGUUGACAUUUAAACACUUGUUUUUUCGCUUACCCAGUCAACGGCGAC
......(((((......)))))((..((((......((((.(((....))))))).....))))..))(((((((((((....((((....))))....(......).))))))))))). (-24.48 = -24.88 +   0.40)

alignment

secondary structure

dotplot

Window 5

Location	10,526,957 – 10,527,077
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	95.75
Mean single sequence MFE	-31.18
Consensus MFE	-23.96
Energy contribution	-24.36
Covariance contribution	0.40
Combinations/Pair	1.07
Mean z-score	-3.43
Structure conservation index	0.77
SVM decision value	1.51
SVM RNA-class probability	0.960161
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10526957 120 - 20766785
GUCGACGUUGACUGGGUAAGCGAAAAAACAAGUGUUUAAAUGUCAACAGCAAACAAACUAAAAAUCGCUGGCAAAAACCAAGCAGCCAGCCAGCAAGCAGACAAAGGAGUAUCUAGACAU
(((..(((((((....((((((..........))))))...))))))...................((((((................))))))..)..))).................. ( -25.49)
>DroSec_CAF1 27794 116 - 1
GUCGCCGUUGACUGGGUAAGCGAAAAAACAAGUGUUUAAAUGUCAACGGCAAACAAACUAAAAAUCGCUGGCAAAAACCAAGCAGC----CAGCAAGCAGACAAAGGAGUAUCUAGACAU
((((((((((((....((((((..........))))))...)))))))))................((((((............))----)))).....))).................. ( -34.50)
>DroSim_CAF1 23978 116 - 1
GUCGCCGUUGACUGGGUAAGCGAAAAAACAAGUGUUUAAAUGUCAACGGCAAACAAACUAAAAAUCUCUGGCAAAAACCAAGCAGC----CAGCAAGCAGACAAAGGAGUAUCUAGACAU
((((((((((((....((((((..........))))))...)))))))))......(((.....((((((((............))----))).....)))......))).....))).. ( -30.50)
>DroEre_CAF1 30051 116 - 1
GUUGCCGUUGACUGGGUAAGCGAAAAAACAAGUGUUUAAAUGUCAACGGCAAACAAACUAAAAAUCGCUGGCAAAAACCAAGCAGC----CAGCAAGCAGACAAAGGAGUAUCUAGACAU
.(((((((((((....((((((..........))))))...)))))))))))..............((((((............))----)))).......................... ( -32.40)
>DroYak_CAF1 28141 116 - 1
GUUGCCGUAGACUGGGUAAGCGAAAAAACAAGUGUUUAAAUGUCAACGGCAAACAAACUAAAAAUCGCUGGCAAAAACCAAGCUGC----CAGCGAGCAGACAAAGGAGUAUCUAAACAU
.(((((((.(((....((((((..........))))))...))).)))))))............(((((((((..........)))----))))))........................ ( -33.00)
>consensus
GUCGCCGUUGACUGGGUAAGCGAAAAAACAAGUGUUUAAAUGUCAACGGCAAACAAACUAAAAAUCGCUGGCAAAAACCAAGCAGC____CAGCAAGCAGACAAAGGAGUAUCUAGACAU
((((((((((((....((((((..........))))))...)))))))))......(((.....(((((((......)).))).((......)).....))......))).....))).. (-23.96 = -24.36 +   0.40)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:46:24 2006