Locus 2999

Sequence ID	X_DroMel_CAF1
Location	7,990,806 – 7,990,915
Length	109
Max. P	0.900573

overview

Window 7

Location	7,990,806 – 7,990,915
Length	109
Sequences	3
Columns	109
Reading direction	forward
Mean pairwise identity	88.69
Mean single sequence MFE	-27.45
Consensus MFE	-20.95
Energy contribution	-20.40
Covariance contribution	-0.55
Combinations/Pair	1.17
Mean z-score	-1.99
Structure conservation index	0.76
SVM decision value	-0.03
SVM RNA-class probability	0.519024
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7990806 109 + 22224390
AGCCUAUCGGAGCUAUCGUUCUUCGAUAACUGCGUCUAUCGUUCGAAACGACGACGGUGGCUAAAAAAUAGCCAAUAAGCUUAAAAUAGCUAUAAUUAUAUCUAGAUAU
....(((((((((....)))))..((((((((((((..((....))...)))).))))(((((.....)))))....((((......)))).......))))..)))). ( -26.10)
>DroSec_CAF1 1924 109 + 1
AGCCUAUCGGAGCUAUCGUUCUUCGAUAACUGCGUCUAUCGUUCGAAACAACGACGGUGGCUAAAAAAUAGCCAAUAAGCUUAAAAUAGCUAGAAUUAUAUCUUGAUAU
....(((((((((..(((((.(((((.....(((.....))))))))..)))))..))(((((.....)))))....((((......)))).........)).))))). ( -24.70)
>DroEre_CAF1 2944 109 + 1
AGCCUAUCGGAGCUAUCGUUUUUCGAUAGCCGGGCUUAUCGUGCGGAACGACGAUGGUGGCUAAAAAAUACCCAAAAAGCUUAAAAUAGCUAGCAUUAAAUAUGGGUAU
(((((((((..(((((((.....))))))(((.((.....)).)))..)..)))))..)))).....(((((((...((((......))))...........))))))) ( -31.54)
>consensus
AGCCUAUCGGAGCUAUCGUUCUUCGAUAACUGCGUCUAUCGUUCGAAACGACGACGGUGGCUAAAAAAUAGCCAAUAAGCUUAAAAUAGCUAGAAUUAUAUCUAGAUAU
....((((((((........)))))))).....(((((((((.((......))))))((((((.....))))))...((((......))))...........))))).. (-20.95 = -20.40 +  -0.55)

alignment

secondary structure

dotplot

Window 8

Location	7,990,806 – 7,990,915
Length	109
Sequences	3
Columns	109
Reading direction	reverse
Mean pairwise identity	88.69
Mean single sequence MFE	-30.15
Consensus MFE	-24.45
Energy contribution	-24.57
Covariance contribution	0.12
Combinations/Pair	1.13
Mean z-score	-2.79
Structure conservation index	0.81
SVM decision value	1.01
SVM RNA-class probability	0.900573
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7990806 109 - 22224390
AUAUCUAGAUAUAAUUAUAGCUAUUUUAAGCUUAUUGGCUAUUUUUUAGCCACCGUCGUCGUUUCGAACGAUAGACGCAGUUAUCGAAGAACGAUAGCUCCGAUAGGCU
............................(((((((((((((.....)))))..(((((((((.....))))).)))).((((((((.....))))))))..)))))))) ( -30.70)
>DroSec_CAF1 1924 109 - 1
AUAUCAAGAUAUAAUUCUAGCUAUUUUAAGCUUAUUGGCUAUUUUUUAGCCACCGUCGUUGUUUCGAACGAUAGACGCAGUUAUCGAAGAACGAUAGCUCCGAUAGGCU
......(((......)))..........(((((((((((((.....))))))(..(((((......)))))..).((.((((((((.....)))))))).))))))))) ( -30.10)
>DroEre_CAF1 2944 109 - 1
AUACCCAUAUUUAAUGCUAGCUAUUUUAAGCUUUUUGGGUAUUUUUUAGCCACCAUCGUCGUUCCGCACGAUAAGCCCGGCUAUCGAAAAACGAUAGCUCCGAUAGGCU
(((((((...........((((......))))...))))))).....((((...(((((((...)).)))))......((((((((.....))))))))......)))) ( -29.64)
>consensus
AUAUCAAGAUAUAAUUCUAGCUAUUUUAAGCUUAUUGGCUAUUUUUUAGCCACCGUCGUCGUUUCGAACGAUAGACGCAGUUAUCGAAGAACGAUAGCUCCGAUAGGCU
............................(((((((((((((.....))))))..(((((((...)).)))))...((.((((((((.....)))))))).))))))))) (-24.45 = -24.57 +   0.12)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:48:41 2006