Locus 10159

Sequence ID	3R_DroMel_CAF1
Location	27,290,183 – 27,290,290
Length	107
Max. P	0.998567

overview

Window 2

Location	27,290,183 – 27,290,290
Length	107
Sequences	5
Columns	110
Reading direction	forward
Mean pairwise identity	92.05
Mean single sequence MFE	-32.94
Consensus MFE	-29.46
Energy contribution	-30.46
Covariance contribution	1.00
Combinations/Pair	1.00
Mean z-score	-2.21
Structure conservation index	0.89
SVM decision value	3.14
SVM RNA-class probability	0.998567
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 27290183 107 + 27905053
UUAUGAUGCAAUCGCAACAAUCUCCAGCGCCCAUCUAGCCAUCUUCAAUCGGCGCUGCAGGCAUCCCAGCCAGCGCUGCAGUCAUCC---GGCGGUACAGCGAUCGUAUC
....(((((.(((((.........(((((((.((..((....))...)).)))))))..(((......)))..(((((........)---)))).....))))).))))) ( -34.10)
>DroSec_CAF1 62894 107 + 1
UUAUGAUGCAAUCGCAACAAUCUCCAGCGCCCAUCUAGCCAUCUUCAAUCGGCGCUGCAGGCAUCCCAGCCAGCGCUGCAGUCAUCC---GGCGGUACAGCGAUCGUAUC
....(((((.(((((.........(((((((.((..((....))...)).)))))))..(((......)))..(((((........)---)))).....))))).))))) ( -34.10)
>DroSim_CAF1 63757 107 + 1
UUAUGAUGCAAUCGCAACAAUCUCCAGCGCCCAUCUAGCCAUCUUCAAUCGGCGCUGCAGGCAUCCCAGCCAGCGCUGCAGUCAUCC---GGCGGUACAGCGAUCGUAUC
....(((((.(((((.........(((((((.((..((....))...)).)))))))..(((......)))..(((((........)---)))).....))))).))))) ( -34.10)
>DroEre_CAF1 65810 91 + 1
UUAUGAUGCAAUCGCAACAAUCUCCAGCGCCCAUCUAGCCAUCUUCAAUCGGCGCUGCAGGCAUCCCAGCCA-------------------GCGGUACAGCGAUCGUAUC
....(((((.(((((.........(((((((.((..((....))...)).)))))))..(((......))).-------------------........))))).))))) ( -28.60)
>DroYak_CAF1 69248 110 + 1
UUAUGAUGCAAUCGCAACAAUCUCCAGCGCCCAUCUAGCCAUCUUCAAUCGGCGCUGCAGGCAUCCCAGCCAGCGCUGCAGCCAUCCACCAGCGGUAAAGCGAUCGUAUC
....(((((.(((((.........(((((((.((..((....))...)).)))))))..(((......)))..(((((...........))))).....))))).))))) ( -33.80)
>consensus
UUAUGAUGCAAUCGCAACAAUCUCCAGCGCCCAUCUAGCCAUCUUCAAUCGGCGCUGCAGGCAUCCCAGCCAGCGCUGCAGUCAUCC___GGCGGUACAGCGAUCGUAUC
....(((((.(((((.........(((((((.((..((....))...)).)))))))..(((......)))...(((((............)))))...))))).))))) (-29.46 = -30.46 +   1.00)

alignment

secondary structure

dotplot

Window 3

Location	27,290,183 – 27,290,290
Length	107
Sequences	5
Columns	110
Reading direction	reverse
Mean pairwise identity	92.05
Mean single sequence MFE	-41.68
Consensus MFE	-35.78
Energy contribution	-35.96
Covariance contribution	0.18
Combinations/Pair	1.03
Mean z-score	-2.05
Structure conservation index	0.86
SVM decision value	2.23
SVM RNA-class probability	0.990758
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 27290183 107 - 27905053
GAUACGAUCGCUGUACCGCC---GGAUGACUGCAGCGCUGGCUGGGAUGCCUGCAGCGCCGAUUGAAGAUGGCUAGAUGGGCGCUGGAGAUUGUUGCGAUUGCAUCAUAA
(((.(((((((....(((((---((.((....))...))))).)).....((.(((((((.(((..((....)).))).))))))).))......))))))).))).... ( -43.10)
>DroSec_CAF1 62894 107 - 1
GAUACGAUCGCUGUACCGCC---GGAUGACUGCAGCGCUGGCUGGGAUGCCUGCAGCGCCGAUUGAAGAUGGCUAGAUGGGCGCUGGAGAUUGUUGCGAUUGCAUCAUAA
(((.(((((((....(((((---((.((....))...))))).)).....((.(((((((.(((..((....)).))).))))))).))......))))))).))).... ( -43.10)
>DroSim_CAF1 63757 107 - 1
GAUACGAUCGCUGUACCGCC---GGAUGACUGCAGCGCUGGCUGGGAUGCCUGCAGCGCCGAUUGAAGAUGGCUAGAUGGGCGCUGGAGAUUGUUGCGAUUGCAUCAUAA
(((.(((((((....(((((---((.((....))...))))).)).....((.(((((((.(((..((....)).))).))))))).))......))))))).))).... ( -43.10)
>DroEre_CAF1 65810 91 - 1
GAUACGAUCGCUGUACCGC-------------------UGGCUGGGAUGCCUGCAGCGCCGAUUGAAGAUGGCUAGAUGGGCGCUGGAGAUUGUUGCGAUUGCAUCAUAA
(((.(((((((.((.((((-------------------.(((......))).))((((((.(((..((....)).))).))))))))..))....))))))).))).... ( -35.00)
>DroYak_CAF1 69248 110 - 1
GAUACGAUCGCUUUACCGCUGGUGGAUGGCUGCAGCGCUGGCUGGGAUGCCUGCAGCGCCGAUUGAAGAUGGCUAGAUGGGCGCUGGAGAUUGUUGCGAUUGCAUCAUAA
(((.(((((((....((((..(((..((....)).)))..)).)).....((.(((((((.(((..((....)).))).))))))).))......))))))).))).... ( -44.10)
>consensus
GAUACGAUCGCUGUACCGCC___GGAUGACUGCAGCGCUGGCUGGGAUGCCUGCAGCGCCGAUUGAAGAUGGCUAGAUGGGCGCUGGAGAUUGUUGCGAUUGCAUCAUAA
(((.(((((((....(((((......((....)).....))).)).....((.(((((((.(((..((....)).))).))))))).))......))))))).))).... (-35.78 = -35.96 +   0.18)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:50:06 2006