Locus 1030

Sequence ID	3L_DroMel_CAF1
Location	3,060,379 – 3,060,514
Length	135
Max. P	0.934741

overview

Window 9

Location	3,060,379 – 3,060,485
Length	106
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	77.41
Mean single sequence MFE	-29.35
Consensus MFE	-11.25
Energy contribution	-14.19
Covariance contribution	2.95
Combinations/Pair	1.09
Mean z-score	-2.57
Structure conservation index	0.38
SVM decision value	0.69
SVM RNA-class probability	0.822908
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3060379 106 - 23771897
CGAAAUUAAAUAGCCAAGA----------AGGCACGAAAAGACAAAAGGG--AGGGAAAGGCGU--CGUAAGACGUGGGAAAGACCAUGCUGGUGUCAUUAUUAGCCGCUUUUGCCAAAA
............(((....----------.))).................--.((.((((((((--(....)))((((......))))(((((((....))))))).)))))).)).... ( -30.80)
>DroSec_CAF1 21075 106 - 1
CGAAAUUAAAUAGCCAAGA----------AGGCACGAAAAGACAAAAGGG--GGGAAAUGGCGU--CGAAAGACGUGGGAAAGACCAUGCUGGUGUCAUUAUUAGCCGCUUUUGCCAAAA
............(((....----------.))).......(.((((((.(--(.((((((((((--(....)))((((......))))......)))))).))..)).)))))).).... ( -30.40)
>DroSim_CAF1 20650 106 - 1
CGAAAUUAAAUAGCCAAGA----------AGGCACGAAAAGACAAAAGGG--GGGAAAAGGCGU--CGAAAGACGUGGGAAAGACCAUGCUGGUGUCAUUAUUAGCCGCUUUUGCCAAAA
............(((....----------.))).................--.((.((((((((--(....)))((((......))))(((((((....))))))).)))))).)).... ( -29.50)
>DroEre_CAF1 21662 118 - 1
CGAAAUUAAAUAGCCAAAGAGACACAAGCAGACACGAACAGACAAAGGGGGAGGGAAAAGGCGC--AGAAAUAAGUGGGAUACACCAUGCUGGUGUCAUUAUUAGCCGCUUGUGCCAAAA
....................(.(((((((.....(.....)........((..((.((.(((((--((......((((......)))).)).))))).)).))..))))))))).).... ( -22.70)
>DroYak_CAF1 21347 116 - 1
CGAAAUUAAAUAGCCAAGAAGACACAGGAAGGCGCGAACAGACAAAAAGG--GGGAAAAGGCGU--AGAAAGACGUGGGAAACACCAUGCUGGUGUCAUUAUUAGCCGUUUGUGCCAAAA
..............................(((((((((.........((--........((((--......)))).(....).))..(((((((....))))))).))))))))).... ( -28.20)
>DroAna_CAF1 22454 90 - 1
CGAAAUUAAAUAGCCAC--------------ACACCCGGAGACAAAGGGG----C-UAGAGCCCAGAGGAAUGUGUGGGA--------GGUGGGGGC-UUAUUAGCCA--UUUGCCAAAA
.............((((--------------(((.(((....)....(((----(-....))))...))..)))))))..--------((..(((((-(....)))).--))..)).... ( -34.50)
>consensus
CGAAAUUAAAUAGCCAAGA__________AGGCACGAAAAGACAAAAGGG__GGGAAAAGGCGU__AGAAAGACGUGGGAAAGACCAUGCUGGUGUCAUUAUUAGCCGCUUUUGCCAAAA
............(((...............)))....................((.(((((((...........((((......))))(((((((....)))))))))))))).)).... (-11.25 = -14.19 +   2.95)

alignment

secondary structure

dotplot

Window 0

Location	3,060,419 – 3,060,514
Length	95
Sequences	3
Columns	102
Reading direction	reverse
Mean pairwise identity	75.99
Mean single sequence MFE	-26.80
Consensus MFE	-12.57
Energy contribution	-13.13
Covariance contribution	0.56
Combinations/Pair	1.16
Mean z-score	-3.41
Structure conservation index	0.47
SVM decision value	1.24
SVM RNA-class probability	0.934741
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3060419 95 - 23771897
GCAGUGUGAUUUUUGGCA-----AGAAGCGAAUGCGAAAUUAAAUAGCCAAGAAGGCACGAAAAGACAAAAGGGAGGGAAAGGCGU--CGUAAGACGUGGGA
...((((..((((((((.-----..((.((....))...)).....)))))))).)))).......................((((--(....))))).... ( -22.50)
>DroSec_CAF1 21115 100 - 1
GCAGUGUGAUUUUUGGCAAGCCAAGAAGCGAAUGCGAAAUUAAAUAGCCAAGAAGGCACGAAAAGACAAAAGGGGGGAAAUGGCGU--CGAAAGACGUGGGA
(((...((.(((((((....))))))).))..)))...........(((.....))).......................(.((((--(....))))).).. ( -26.50)
>DroAna_CAF1 22483 95 - 1
ACAGUGUGAUUUUUGGCAAGCCGAAAAGCGAAUGCGAAAUUAAAUAGCCAC----ACACCCGGAGACAAAGGGG--C-UAGAGCCCAGAGGAAUGUGUGGGA
...((((..(((((((....)))))))....))))............((((----(((.(((....)....(((--(-....))))...))..))))))).. ( -31.40)
>consensus
GCAGUGUGAUUUUUGGCAAGCC_AGAAGCGAAUGCGAAAUUAAAUAGCCAAGAAGGCACGAAAAGACAAAAGGG_GG_AAAGGCGU__CGAAAGACGUGGGA
...((((..((((((((..........((....))...........)))))))).)))).......................((((..(....))))).... (-12.57 = -13.13 +   0.56)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:57:14 2006