Locus 6002

Sequence ID	3L_DroMel_CAF1
Location	16,024,341 – 16,024,450
Length	109
Max. P	0.706963

overview

Window 0

Location	16,024,341 – 16,024,450
Length	109
Sequences	4
Columns	109
Reading direction	forward
Mean pairwise identity	90.98
Mean single sequence MFE	-22.92
Consensus MFE	-16.92
Energy contribution	-16.93
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-2.07
Structure conservation index	0.74
SVM decision value	0.37
SVM RNA-class probability	0.706963
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16024341 109 + 23771897
UGGCAAAAAUAUGCCAAGCAUUUUUAGUGGCAAAAUGCUAUUGACCUACAUGAGAUACAUGUUCCCCAAGAGAAAAUAAGCGAAAUAGAUACGAUCGAAAUGUUUAAAA
.((((......))))((((((((((((((((.....)))))))....(((((.....)))))..................................))))))))).... ( -20.50)
>DroSec_CAF1 24127 109 + 1
UGGCAAAAAUAUGCCAAGCAUUUUUAGUGGCAAAAUGCUAUUGAGCUACAUGAGAUACAUGCUACCCGAGAGAAAAUAAUCGAAAUAGAUACGAUCGAAAUGUUUAAAU
.((((......))))((((((((((((((((.....)))))))).........(((.....(((..(((..........)))...))).....))).)))))))).... ( -22.00)
>DroSim_CAF1 32761 109 + 1
UGGCAAAAAUAUGCCAAGCAUUUUUAGUGGCAAAAUGCUAUUGAGCUACAUGAGAUACAUGCUACCCGAGAGAAAAUAAGCGAAAUAGAUACGAUCGAAAUGUUUAAAU
.((((......))))((((((((((((((((.....))))))))(((.((((.....)))).....(....)......)))................)))))))).... ( -22.80)
>DroEre_CAF1 27131 104 + 1
UGGCAAAAAUAUGCCAAGCAUUUUUAGUGGCACAAUGCUAUUGAGCCACAUGAGAAC--UUUUCGCCAAGA-AAAAGAAGAGAAAUAGAUACGAUCGAAAUGUUUAA--
.((((......))))(((((((((..(((((.((((...)))).))))).......(--(((((.......-....))))))..............)))))))))..-- ( -26.40)
>consensus
UGGCAAAAAUAUGCCAAGCAUUUUUAGUGGCAAAAUGCUAUUGAGCUACAUGAGAUACAUGCUACCCAAGAGAAAAUAAGCGAAAUAGAUACGAUCGAAAUGUUUAAAU
.((((......))))((((((((((((((((.....))))))))...........................................(((...))).)))))))).... (-16.92 = -16.93 +   0.00)

alignment

secondary structure

dotplot

Window 1

Location	16,024,341 – 16,024,450
Length	109
Sequences	4
Columns	109
Reading direction	reverse
Mean pairwise identity	90.98
Mean single sequence MFE	-23.50
Consensus MFE	-16.05
Energy contribution	-17.80
Covariance contribution	1.75
Combinations/Pair	1.05
Mean z-score	-2.44
Structure conservation index	0.68
SVM decision value	0.07
SVM RNA-class probability	0.569943
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16024341 109 - 23771897
UUUUAAACAUUUCGAUCGUAUCUAUUUCGCUUAUUUUCUCUUGGGGAACAUGUAUCUCAUGUAGGUCAAUAGCAUUUUGCCACUAAAAAUGCUUGGCAUAUUUUUGCCA
.............((((................((..(....)..))(((((.....))))).))))...((((((((.......))))))))(((((......))))) ( -23.30)
>DroSec_CAF1 24127 109 - 1
AUUUAAACAUUUCGAUCGUAUCUAUUUCGAUUAUUUUCUCUCGGGUAGCAUGUAUCUCAUGUAGCUCAAUAGCAUUUUGCCACUAAAAAUGCUUGGCAUAUUUUUGCCA
.............(((((.........)))))..........((((.(((((.....))))).))))...((((((((.......))))))))(((((......))))) ( -25.90)
>DroSim_CAF1 32761 109 - 1
AUUUAAACAUUUCGAUCGUAUCUAUUUCGCUUAUUUUCUCUCGGGUAGCAUGUAUCUCAUGUAGCUCAAUAGCAUUUUGCCACUAAAAAUGCUUGGCAUAUUUUUGCCA
..........................................((((.(((((.....))))).))))...((((((((.......))))))))(((((......))))) ( -23.10)
>DroEre_CAF1 27131 104 - 1
--UUAAACAUUUCGAUCGUAUCUAUUUCUCUUCUUUU-UCUUGGCGAAAA--GUUCUCAUGUGGCUCAAUAGCAUUGUGCCACUAAAAAUGCUUGGCAUAUUUUUGCCA
--...................................-...(((((((((--........(((((.((((...)))).))))).....((((...)))).))))))))) ( -21.70)
>consensus
AUUUAAACAUUUCGAUCGUAUCUAUUUCGCUUAUUUUCUCUCGGGGAACAUGUAUCUCAUGUAGCUCAAUAGCAUUUUGCCACUAAAAAUGCUUGGCAUAUUUUUGCCA
..........................................((((.(((((.....))))).))))...((((((((.......))))))))(((((......))))) (-16.05 = -17.80 +   1.75)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:06:29 2006