Locus 5278

Sequence ID	2R_DroMel_CAF1
Location	17,155,156 – 17,155,257
Length	101
Max. P	0.996358

overview

Window 7

Location	17,155,156 – 17,155,257
Length	101
Sequences	5
Columns	101
Reading direction	forward
Mean pairwise identity	90.69
Mean single sequence MFE	-22.94
Consensus MFE	-19.11
Energy contribution	-19.95
Covariance contribution	0.84
Combinations/Pair	1.04
Mean z-score	-1.70
Structure conservation index	0.83
SVM decision value	1.00
SVM RNA-class probability	0.898693
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17155156 101 + 20766785
AGUGAACUCACUUCGCUUGGCAGGCAGCCAAACAAUUUGCGUUUACUUACCGAGUUGAAUUUCCCAAAUGAUUUGCAACUCUGCCUUUUGCACGCAAGAAA
.(((((.....)))))(((((.....)))))....(((((((.........((((((....((......))....)))))).((.....)))))))))... ( -24.80)
>DroSec_CAF1 22370 101 + 1
AGUGAACUCACUUCGCUUGGCAGGCAGCCAAACAAUUUGCGUUUACUUACCGAGUUGAAUUUCCCAAAUGAUUUGCAACUCUCCUUUUUGCACGCAAGAAA
(((((((.((..(.(.(((((.....))))).).)..)).)))))))....((((((....((......))....))))))...((((((....)))))). ( -24.20)
>DroSim_CAF1 22816 101 + 1
AGUGAACUCACUUCGCUUGGCAGGCAGCCAAACAAUUUGCGUUUACUUACCGAGUUGAAUUUCCCAAAUGAUUUGCAACUCUGCUUUUUGCACGCAAGAAA
.(((((.....)))))(((((.....)))))....(((((((.........((((((....((......))....)))))).((.....)))))))))... ( -26.00)
>DroEre_CAF1 23497 90 + 1
AGUGAAUUCACUUCGCUUGGCAGGCAGCCAAACAAUUUGCGUUUACUUACCGAGUUAAAUUUCCCA-----------ACUCUGCAUUUUGCACGCAAGAAA
.(((((.....)))))(((((.....)))))....(((((((.........(((((.........)-----------)))).((.....)))))))))... ( -21.10)
>DroYak_CAF1 22532 90 + 1
AGUGAAUUCACUUCGCUUGGCAGGCAGCCAAACAAUUUGCGUUUACUUACCGAGUUAAAUUUCCCA-----------ACUUUGCUUUUUGCACGCAAGAAA
.(((((.....)))))(((((.....)))))....(((((((.........(((((.........)-----------)))).((.....)))))))))... ( -18.60)
>consensus
AGUGAACUCACUUCGCUUGGCAGGCAGCCAAACAAUUUGCGUUUACUUACCGAGUUGAAUUUCCCAAAUGAUUUGCAACUCUGCUUUUUGCACGCAAGAAA
.(((((.....)))))(((((.....)))))....(((((((.........((((((..................)))))).((.....)))))))))... (-19.11 = -19.95 +   0.84)

alignment

secondary structure

dotplot

Window 8

Location	17,155,156 – 17,155,257
Length	101
Sequences	5
Columns	101
Reading direction	reverse
Mean pairwise identity	90.69
Mean single sequence MFE	-29.43
Consensus MFE	-24.55
Energy contribution	-25.75
Covariance contribution	1.20
Combinations/Pair	1.00
Mean z-score	-2.52
Structure conservation index	0.83
SVM decision value	2.69
SVM RNA-class probability	0.996358
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17155156 101 - 20766785
UUUCUUGCGUGCAAAAGGCAGAGUUGCAAAUCAUUUGGGAAAUUCAACUCGGUAAGUAAACGCAAAUUGUUUGGCUGCCUGCCAAGCGAAGUGAGUUCACU
....((((((.......((.((((((....((......))....)))))).))......)))))).(((((((((.....)))))))))((((....)))) ( -31.32)
>DroSec_CAF1 22370 101 - 1
UUUCUUGCGUGCAAAAAGGAGAGUUGCAAAUCAUUUGGGAAAUUCAACUCGGUAAGUAAACGCAAAUUGUUUGGCUGCCUGCCAAGCGAAGUGAGUUCACU
....((((((..........((((((....((......))....)))))).........)))))).(((((((((.....)))))))))((((....)))) ( -29.51)
>DroSim_CAF1 22816 101 - 1
UUUCUUGCGUGCAAAAAGCAGAGUUGCAAAUCAUUUGGGAAAUUCAACUCGGUAAGUAAACGCAAAUUGUUUGGCUGCCUGCCAAGCGAAGUGAGUUCACU
....((((((((.....)).((((((....((......))....)))))).........)))))).(((((((((.....)))))))))((((....)))) ( -30.50)
>DroEre_CAF1 23497 90 - 1
UUUCUUGCGUGCAAAAUGCAGAGU-----------UGGGAAAUUUAACUCGGUAAGUAAACGCAAAUUGUUUGGCUGCCUGCCAAGCGAAGUGAAUUCACU
....((((((......(((.((((-----------(((.....))))))).))).....)))))).(((((((((.....)))))))))((((....)))) ( -29.80)
>DroYak_CAF1 22532 90 - 1
UUUCUUGCGUGCAAAAAGCAAAGU-----------UGGGAAAUUUAACUCGGUAAGUAAACGCAAAUUGUUUGGCUGCCUGCCAAGCGAAGUGAAUUCACU
....((((((.......((..(((-----------(((.....))))))..))......)))))).(((((((((.....)))))))))((((....)))) ( -26.02)
>consensus
UUUCUUGCGUGCAAAAAGCAGAGUUGCAAAUCAUUUGGGAAAUUCAACUCGGUAAGUAAACGCAAAUUGUUUGGCUGCCUGCCAAGCGAAGUGAGUUCACU
....((((((.......((.((((((..................)))))).))......)))))).(((((((((.....)))))))))((((....)))) (-24.55 = -25.75 +   1.20)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:41:02 2006