Locus 4075

Sequence ID	2L_DroMel_CAF1
Location	11,757,945 – 11,758,048
Length	103
Max. P	0.549424

overview

Window 2

Location	11,757,945 – 11,758,048
Length	103
Sequences	5
Columns	103
Reading direction	forward
Mean pairwise identity	96.89
Mean single sequence MFE	-31.10
Consensus MFE	-29.62
Energy contribution	-29.62
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-1.08
Structure conservation index	0.95
SVM decision value	-0.05
SVM RNA-class probability	0.506150
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11757945 103 + 22407834
CCCACCAUUUUAGCCGUUGAUAAGCUGCAGAGUUUUAUGGCAUUUGGCGUGGCCAACUUUUGAUUGAUAUUGGCCAGACAGCGUCGGUUGGCCGCCCAUCACA
............(((((....(((((....))))).)))))...(((.((((((((((.......((..(((......)))..)))))))))))))))..... ( -32.61)
>DroSec_CAF1 16265 103 + 1
CCCACCAUUUUAGCCGUUGAUAAGCUGCCGAGUUUUAUGGCAUUUGGCGUGGCCAACUUUUGAUUGAUAUUGGCCAGACAGCCUCGGUUGGCCGCCCAUCACA
............(((((....(((((....))))).)))))...(((.((((((((((...(((....)))(((......)))..)))))))))))))..... ( -32.50)
>DroSim_CAF1 15375 103 + 1
CCCACCAUUUUAGCCGUUGAUAAGCUGCCGAGUUUUAUGGCAUUUGGCGUGGCCAACUUUUGAUUGAUAUUGGCCAGACAGCCUCGGUUGGCCGCCCAUCACA
............(((((....(((((....))))).)))))...(((.((((((((((...(((....)))(((......)))..)))))))))))))..... ( -32.50)
>DroEre_CAF1 23660 102 + 1
GCC-CCAUUUAAGCCGUUGAUAAGCUGCAGAGUUUUAUGGCAUUUGGCGUGGCCAACUUUUGAUUGAUAUUGGCCAGACAGCGUCGGUUGCCCGCCCAUCACA
...-........(((((....(((((....))))).)))))....(((((((((((..((.....))..)))))))..((((....))))..))))....... ( -28.30)
>DroYak_CAF1 17279 102 + 1
CCC-CCAUUUUAGCCGUUGAUAAGCUGCAGAGUUUUAUGGCAUUUGGCGUGGCCAACUUUUGAUUGAUAUUGGCCAGACAGCCUCGGUUGCCCGCCCAUCACA
...-........(((((....(((((....))))).)))))....(((((((((((..((.....))..)))))))..((((....))))..))))....... ( -29.60)
>consensus
CCCACCAUUUUAGCCGUUGAUAAGCUGCAGAGUUUUAUGGCAUUUGGCGUGGCCAACUUUUGAUUGAUAUUGGCCAGACAGCCUCGGUUGGCCGCCCAUCACA
............(((((....(((((....))))).)))))....(((((((((((..((.....))..)))))))..((((....))))..))))....... (-29.62 = -29.62 +  -0.00)

alignment

secondary structure

dotplot

Window 3

Location	11,757,945 – 11,758,048
Length	103
Sequences	5
Columns	103
Reading direction	reverse
Mean pairwise identity	96.89
Mean single sequence MFE	-32.08
Consensus MFE	-26.54
Energy contribution	-26.94
Covariance contribution	0.40
Combinations/Pair	1.00
Mean z-score	-1.52
Structure conservation index	0.83
SVM decision value	0.03
SVM RNA-class probability	0.549424
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11757945 103 - 22407834
UGUGAUGGGCGGCCAACCGACGCUGUCUGGCCAAUAUCAAUCAAAAGUUGGCCACGCCAAAUGCCAUAAAACUCUGCAGCUUAUCAACGGCUAAAAUGGUGGG
..(((((((((((.....(((...)))((((((((...........)))))))).)))...(((...........))))))))))).(.(((.....))).). ( -29.10)
>DroSec_CAF1 16265 103 - 1
UGUGAUGGGCGGCCAACCGAGGCUGUCUGGCCAAUAUCAAUCAAAAGUUGGCCACGCCAAAUGCCAUAAAACUCGGCAGCUUAUCAACGGCUAAAAUGGUGGG
......((((((((......))))))))(((((((...........))))))).(((((...(((.........)))((((.......))))....))))).. ( -35.70)
>DroSim_CAF1 15375 103 - 1
UGUGAUGGGCGGCCAACCGAGGCUGUCUGGCCAAUAUCAAUCAAAAGUUGGCCACGCCAAAUGCCAUAAAACUCGGCAGCUUAUCAACGGCUAAAAUGGUGGG
......((((((((......))))))))(((((((...........))))))).(((((...(((.........)))((((.......))))....))))).. ( -35.70)
>DroEre_CAF1 23660 102 - 1
UGUGAUGGGCGGGCAACCGACGCUGUCUGGCCAAUAUCAAUCAAAAGUUGGCCACGCCAAAUGCCAUAAAACUCUGCAGCUUAUCAACGGCUUAAAUGG-GGC
..((((((((((....))...((.((.((((((((...........)))))))).)).....))..............))))))))...((((.....)-))) ( -28.40)
>DroYak_CAF1 17279 102 - 1
UGUGAUGGGCGGGCAACCGAGGCUGUCUGGCCAAUAUCAAUCAAAAGUUGGCCACGCCAAAUGCCAUAAAACUCUGCAGCUUAUCAACGGCUAAAAUGG-GGG
..((((((((((....))..(((.((.((((((((...........)))))))).)).....))).............)))))))).............-... ( -31.50)
>consensus
UGUGAUGGGCGGCCAACCGAGGCUGUCUGGCCAAUAUCAAUCAAAAGUUGGCCACGCCAAAUGCCAUAAAACUCUGCAGCUUAUCAACGGCUAAAAUGGUGGG
..((((((((((....))..(((.((.((((((((...........)))))))).)).....))).............))))))))................. (-26.54 = -26.94 +   0.40)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:08:43 2006