Locus 8330

Sequence ID	3L_DroMel_CAF1
Location	21,813,585 – 21,813,675
Length	90
Max. P	0.974684

overview

Window 2

Location	21,813,585 – 21,813,675
Length	90
Sequences	5
Columns	90
Reading direction	forward
Mean pairwise identity	92.56
Mean single sequence MFE	-21.74
Consensus MFE	-17.56
Energy contribution	-17.92
Covariance contribution	0.36
Combinations/Pair	1.05
Mean z-score	-2.22
Structure conservation index	0.81
SVM decision value	1.73
SVM RNA-class probability	0.974684
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21813585 90 + 23771897
GCAAGCCAUCGAAAAGUAACGACCGAAAUAACGGCAGUUGUCGCAUAGCAAAUGCCAAUUGCGAAUUGCGAGUUGCAAACGCAAAUCAAA
((((............((((..(((......)))..))))(((((..((....))....))))).))))((.((((....)))).))... ( -22.70)
>DroSec_CAF1 38897 90 + 1
GCAAGCCAUCGAAAAGUAACAACCGAAAUAACGGCAGUUGUCGCAUAGCAAAUGCCAAUUGCGAAUUGCGAGUUGCAAACGCAAAUCAAA
((((............((((..(((......)))..))))(((((..((....))....))))).))))((.((((....)))).))... ( -21.20)
>DroSim_CAF1 39242 90 + 1
GCAAGCCAUCGAAAAGUAACGACCGAAAUAACGGCUGUUGUCGCAUAGCAAAUGCCAAUUGCGAAUUGCGAGUUGCAAACGCAAAUCAAA
((((............(((((.(((......))).)))))(((((..((....))....))))).))))((.((((....)))).))... ( -22.60)
>DroEre_CAF1 40035 90 + 1
GCAAGCGAUCGAAAAUUAACGCCCGAAAUAACGGCAAUUGUCGCAUAGCAAAUGCCAGUUGCAAAUUGCGAGUUGCAAGCGCAAAUCAAA
(((((((............)))...........(((((((..((((.....)))))))))))...))))((.((((....)))).))... ( -21.20)
>DroYak_CAF1 53673 90 + 1
GCAAGCCAUCGAAAAGUUACGACCGAAAUAACGGCAGUUGUCGCAUAGCAAAUGCCAGUUGCAAAUUGCGAGUAAAAAUCGCAAAAUAAA
((((....(((........)))..........((((.((((......)))).))))..))))...((((((.......))))))...... ( -21.00)
>consensus
GCAAGCCAUCGAAAAGUAACGACCGAAAUAACGGCAGUUGUCGCAUAGCAAAUGCCAAUUGCGAAUUGCGAGUUGCAAACGCAAAUCAAA
((((....(((............)))......((((.((((......)))).))))..))))((.(((((.........))))).))... (-17.56 = -17.92 +   0.36)

alignment

secondary structure

dotplot

Window 3

Location	21,813,585 – 21,813,675
Length	90
Sequences	5
Columns	90
Reading direction	reverse
Mean pairwise identity	92.56
Mean single sequence MFE	-23.32
Consensus MFE	-20.08
Energy contribution	-20.32
Covariance contribution	0.24
Combinations/Pair	1.11
Mean z-score	-1.76
Structure conservation index	0.86
SVM decision value	1.58
SVM RNA-class probability	0.965498
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21813585 90 - 23771897
UUUGAUUUGCGUUUGCAACUCGCAAUUCGCAAUUGGCAUUUGCUAUGCGACAACUGCCGUUAUUUCGGUCGUUACUUUUCGAUGGCUUGC
......(((((.((((.....))))..)))))...(((...(((((.(((.(((.((((......)))).))).....)))))))).))) ( -24.80)
>DroSec_CAF1 38897 90 - 1
UUUGAUUUGCGUUUGCAACUCGCAAUUCGCAAUUGGCAUUUGCUAUGCGACAACUGCCGUUAUUUCGGUUGUUACUUUUCGAUGGCUUGC
......(((((.((((.....))))..)))))...(((...(((((.(((.(((.((((......)))).))).....)))))))).))) ( -24.80)
>DroSim_CAF1 39242 90 - 1
UUUGAUUUGCGUUUGCAACUCGCAAUUCGCAAUUGGCAUUUGCUAUGCGACAACAGCCGUUAUUUCGGUCGUUACUUUUCGAUGGCUUGC
......(((((.((((.....))))..)))))...(((...(((((.(((.(((.((((......)))).))).....)))))))).))) ( -24.80)
>DroEre_CAF1 40035 90 - 1
UUUGAUUUGCGCUUGCAACUCGCAAUUUGCAACUGGCAUUUGCUAUGCGACAAUUGCCGUUAUUUCGGGCGUUAAUUUUCGAUCGCUUGC
.((((...(((((((.(((..((((((((((..((((....)))))))))..))))).)))....)))))))......))))........ ( -21.80)
>DroYak_CAF1 53673 90 - 1
UUUAUUUUGCGAUUUUUACUCGCAAUUUGCAACUGGCAUUUGCUAUGCGACAACUGCCGUUAUUUCGGUCGUAACUUUUCGAUGGCUUGC
..((..((((((.......))))))..))......(((...(((((.(((..((.((((......)))).))......)))))))).))) ( -20.40)
>consensus
UUUGAUUUGCGUUUGCAACUCGCAAUUCGCAAUUGGCAUUUGCUAUGCGACAACUGCCGUUAUUUCGGUCGUUACUUUUCGAUGGCUUGC
......(((((.((((.....))))..)))))...(((...(((((.(((.(((.((((......)))).))).....)))))))).))) (-20.08 = -20.32 +   0.24)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:12:46 2006