Locus 3621

Sequence ID	3L_DroMel_CAF1
Location	10,660,779 – 10,660,875
Length	96
Max. P	0.983728

overview

Window 6

Location	10,660,779 – 10,660,875
Length	96
Sequences	5
Columns	96
Reading direction	forward
Mean pairwise identity	91.66
Mean single sequence MFE	-25.71
Consensus MFE	-21.14
Energy contribution	-20.82
Covariance contribution	-0.32
Combinations/Pair	1.10
Mean z-score	-2.19
Structure conservation index	0.82
SVM decision value	1.95
SVM RNA-class probability	0.983728
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10660779 96 + 23771897
CCCAACACUACUCACCUGUCAAAAUACGCCGAAGUCGGCCUCUGUAUGAGGAUUUAUCAAAAACCGAGGUGACUUCGUGCAAGUGGCACUUAAUAU
................(((((......((((((((((.((((.((.(((.......)))...)).)))))))))))).))...)))))........ ( -25.40)
>DroSec_CAF1 5428 91 + 1
CCCAACAUUGC-----UGUCAAAAUAAACCGAAGUCGGCCUCUGUAUGAGGAUUUAUCAAAAACCGAGGUGACUUCGUGCAAGUGGCACUAAAUAU
.(((...((((-----.((........))((((((((.((((.((.(((.......)))...)).)))))))))))).)))).))).......... ( -23.40)
>DroSim_CAF1 4872 96 + 1
CCCAACACUACUCACCUGUCAAAAUAAACCGAAGUCGGCCUCUGUAUGAGGAUUUAUCAAAAACCGAGGUGACUUCGUGCAAGUGGCACUAAAUAU
................(((((........((((((((.((((.((.(((.......)))...)).))))))))))))......)))))........ ( -22.54)
>DroEre_CAF1 5066 95 + 1
CCCAACACUACUCACCUGUCAA-AUCAGCCGAAGUCGGCCUCUGUAUGAGGAUUUUCCAAAAACCGAGGAGACUUCGUGCAAGUGGCACUAAAGAU
................(((((.-....(((((((((..((((.((.(..((.....))..).)).)))).))))))).))...)))))........ ( -27.00)
>DroYak_CAF1 4942 95 + 1
CCCAACACUACUCACCUGUCAA-AUCAGCCGAAGUCGGCCUCUGUAUGAGGAUUUUCCAAAAACCGAGGAGACUUCGUGCGAGUGGCACUAAAUAU
.......((((((...((....-..))(((((((((..((((.((.(..((.....))..).)).)))).))))))).)))))))).......... ( -30.20)
>consensus
CCCAACACUACUCACCUGUCAAAAUAAGCCGAAGUCGGCCUCUGUAUGAGGAUUUAUCAAAAACCGAGGUGACUUCGUGCAAGUGGCACUAAAUAU
................(((((......(((((((((..((((.....))))....(((.........)))))))))).))...)))))........ (-21.14 = -20.82 +  -0.32)

alignment

secondary structure

dotplot

Window 7

Location	10,660,779 – 10,660,875
Length	96
Sequences	5
Columns	96
Reading direction	reverse
Mean pairwise identity	91.66
Mean single sequence MFE	-29.82
Consensus MFE	-22.54
Energy contribution	-23.34
Covariance contribution	0.80
Combinations/Pair	1.07
Mean z-score	-2.01
Structure conservation index	0.76
SVM decision value	0.62
SVM RNA-class probability	0.801815
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10660779 96 - 23771897
AUAUUAAGUGCCACUUGCACGAAGUCACCUCGGUUUUUGAUAAAUCCUCAUACAGAGGCCGACUUCGGCGUAUUUUGACAGGUGAGUAGUGUUGGG
((((((..((((....((.(((((((.((((.((...(((.......))).)).))))..)))))))))((......)).))))..)))))).... ( -28.30)
>DroSec_CAF1 5428 91 - 1
AUAUUUAGUGCCACUUGCACGAAGUCACCUCGGUUUUUGAUAAAUCCUCAUACAGAGGCCGACUUCGGUUUAUUUUGACA-----GCAAUGUUGGG
..........((((((((.(((((((.((((.((...(((.......))).)).))))..)))))))(((......))).-----)))).).))). ( -26.20)
>DroSim_CAF1 4872 96 - 1
AUAUUUAGUGCCACUUGCACGAAGUCACCUCGGUUUUUGAUAAAUCCUCAUACAGAGGCCGACUUCGGUUUAUUUUGACAGGUGAGUAGUGUUGGG
....((((..(.(((..(.(((((((.((((.((...(((.......))).)).))))..)))))))(((......)))..)..))).)..)))). ( -29.20)
>DroEre_CAF1 5066 95 - 1
AUCUUUAGUGCCACUUGCACGAAGUCUCCUCGGUUUUUGGAAAAUCCUCAUACAGAGGCCGACUUCGGCUGAU-UUGACAGGUGAGUAGUGUUGGG
....((((..(.(((..(.(((((((.((((.((....((.....))....)).))))..))))))).(((..-....))))..))).)..)))). ( -31.50)
>DroYak_CAF1 4942 95 - 1
AUAUUUAGUGCCACUCGCACGAAGUCUCCUCGGUUUUUGGAAAAUCCUCAUACAGAGGCCGACUUCGGCUGAU-UUGACAGGUGAGUAGUGUUGGG
....((((..(.((((((.(((((((.((((.((....((.....))....)).))))..))))))).(((..-....))))))))).)..)))). ( -33.90)
>consensus
AUAUUUAGUGCCACUUGCACGAAGUCACCUCGGUUUUUGAUAAAUCCUCAUACAGAGGCCGACUUCGGCUUAUUUUGACAGGUGAGUAGUGUUGGG
.....((.((((((((((((((((((.((((.((...(((.......))).)).))))..)))))))........)).)))))).))).))..... (-22.54 = -23.34 +   0.80)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:02:29 2006