Locus 6106

Sequence ID	X_DroMel_CAF1
Location	15,648,365 – 15,648,478
Length	113
Max. P	0.942964

overview

Window 2

Location	15,648,365 – 15,648,478
Length	113
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	90.04
Mean single sequence MFE	-40.02
Consensus MFE	-28.66
Energy contribution	-28.97
Covariance contribution	0.31
Combinations/Pair	1.08
Mean z-score	-3.02
Structure conservation index	0.72
SVM decision value	0.85
SVM RNA-class probability	0.865353
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15648365 113 + 22224390
UCUGGUUUUUCUUUGGUGACUU--UCCUCGUGGG-----UUCUCAAUGCAAAGCACAUGCACAUGCAUGGCGGGUUUUCAUUUGAGAAAGUCACCCGAAAACGGAGACCUGAACUGCAGG
((((...((((...((((((((--(((..(((((-----..(((..(((...)))(((((....)))))..)))..)))))..).)))))))))).)))).))))..((((.....)))) ( -39.20)
>DroSec_CAF1 5102 113 + 1
UCUGGUUUUUCUUUGGUGACUU--UCCUCGUGGG-----UUCUCAAUGCAAAGCACAUGCACAUGCAUGGCGGGUUUUCAUUUGAGAAAGUCACCCGAAAACGGAGACCUGAACUGCAGG
((((...((((...((((((((--(((..(((((-----..(((..(((...)))(((((....)))))..)))..)))))..).)))))))))).)))).))))..((((.....)))) ( -39.20)
>DroEre_CAF1 4733 107 + 1
UCUGGUUUGUCUUUGGUGACUU--UCCUCUUGGG-----UUCUCAAUGCAAAGCACA------UGCAUGGAGAGUUUCCAUUUGAGAAAGUCACCCGAAAACGGAGACCUGAACUGCAGG
((((.....((...((((((((--((.((.((((-----(((((.(((((.......------))))).)))))..))))...)))))))))))).))...))))..((((.....)))) ( -37.60)
>DroYak_CAF1 5354 114 + 1
UCUGGUUUUUGUUUGGUGACUUUUUCCUCGUGGGUUCGGUUCUCAAUGCAAAGCACA------UGCAUGGAGAGUUUCCAUUUGAGAAAGUCACCCAAAAACGGAGACCUGAACUGCAGG
((.(((((((((((((((((((((((...(((((..(...((((.(((((.......------))))).)))))..)))))..))))))))))))...))))))))))).))........ ( -44.10)
>consensus
UCUGGUUUUUCUUUGGUGACUU__UCCUCGUGGG_____UUCUCAAUGCAAAGCACA______UGCAUGGAGAGUUUCCAUUUGAGAAAGUCACCCGAAAACGGAGACCUGAACUGCAGG
((((.(((((....((((((((....((((((((.....(((((.(((((.............))))).)))))..)))))..))).)))))))).)))))))))..((((.....)))) (-28.66 = -28.97 +   0.31)

alignment

secondary structure

dotplot

Window 3

Location	15,648,365 – 15,648,478
Length	113
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	90.04
Mean single sequence MFE	-35.15
Consensus MFE	-27.05
Energy contribution	-29.05
Covariance contribution	2.00
Combinations/Pair	1.00
Mean z-score	-2.84
Structure conservation index	0.77
SVM decision value	1.33
SVM RNA-class probability	0.942964
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15648365 113 - 22224390
CCUGCAGUUCAGGUCUCCGUUUUCGGGUGACUUUCUCAAAUGAAAACCCGCCAUGCAUGUGCAUGUGCUUUGCAUUGAGAA-----CCCACGAGGA--AAGUCACCAAAGAAAAACCAGA
((((.....))))(((...(((((.((((((((((((((.((.(((...(((((((....))))).))))).)))))))).-----.((....)).--))))))))...)))))...))) ( -35.20)
>DroSec_CAF1 5102 113 - 1
CCUGCAGUUCAGGUCUCCGUUUUCGGGUGACUUUCUCAAAUGAAAACCCGCCAUGCAUGUGCAUGUGCUUUGCAUUGAGAA-----CCCACGAGGA--AAGUCACCAAAGAAAAACCAGA
((((.....))))(((...(((((.((((((((((((((.((.(((...(((((((....))))).))))).)))))))).-----.((....)).--))))))))...)))))...))) ( -35.20)
>DroEre_CAF1 4733 107 - 1
CCUGCAGUUCAGGUCUCCGUUUUCGGGUGACUUUCUCAAAUGGAAACUCUCCAUGCA------UGUGCUUUGCAUUGAGAA-----CCCAAGAGGA--AAGUCACCAAAGACAAACCAGA
((((.....)))).....(((((..(((((((((((....(((....((((.(((((------.......))))).)))).-----.)))...)))--)))))))).)))))........ ( -35.50)
>DroYak_CAF1 5354 114 - 1
CCUGCAGUUCAGGUCUCCGUUUUUGGGUGACUUUCUCAAAUGGAAACUCUCCAUGCA------UGUGCUUUGCAUUGAGAACCGAACCCACGAGGAAAAAGUCACCAAACAAAAACCAGA
((((.....)))).....(((((((((((((((((((....(....)((((.(((((------.......))))).))))...........)))))...)))))))...))))))).... ( -34.70)
>consensus
CCUGCAGUUCAGGUCUCCGUUUUCGGGUGACUUUCUCAAAUGAAAACCCGCCAUGCA______UGUGCUUUGCAUUGAGAA_____CCCACGAGGA__AAGUCACCAAAGAAAAACCAGA
((((.....))))(((...(((((.(((((((((((((((((((.....)))))((((......))))......)))))).......((....))...))))))))...)))))...))) (-27.05 = -29.05 +   2.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:04:20 2006