Locus 3585

Sequence ID	3R_DroMel_CAF1
Location	9,682,042 – 9,682,138
Length	96
Max. P	0.922860

overview

Window 1

Location	9,682,042 – 9,682,138
Length	96
Sequences	5
Columns	96
Reading direction	forward
Mean pairwise identity	95.62
Mean single sequence MFE	-27.72
Consensus MFE	-24.78
Energy contribution	-24.90
Covariance contribution	0.12
Combinations/Pair	1.09
Mean z-score	-1.52
Structure conservation index	0.89
SVM decision value	1.15
SVM RNA-class probability	0.922860
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9682042 96 + 27905053
GUGGCUGUGGUGAUGUUCCUGGUGUUUCUGCUGGUUGUUCUCCACCGAACUUUUCGACGUGGCGGCACUUAACACCACGCAUCAUUUUAAUUAUUU
((((.((..(((((((...(((((((..(((((........(((((((.....)))..)))))))))...))))))).)))))))..)).)))).. ( -27.00)
>DroSec_CAF1 6266 96 + 1
GUGGCUGUGGUGGUGUUCCUGGUGUUUCUGCUGGUUGUUCUCCACCGAACUUUUCGACGUGGCGGCACUUAACACCACGCAUCAUUUUAAUUAUUU
((((.((((.(((((((...(((((..(..((((..((((......))))...)))..)..)..))))).)))))))))))))))........... ( -28.70)
>DroSim_CAF1 5305 96 + 1
GUGGCAGUGGUGGUGUUCCUGGUGUUUCUGCUGGUUGUUCUCCACCGAACUUUUCGACGUGGCGGCACUUAACACCACGCAUCAUUUUAAUUAUUU
......(((((((((((...(((((..(..((((..((((......))))...)))..)..)..))))).)))))))).))).............. ( -27.20)
>DroEre_CAF1 6033 96 + 1
GUGACUGUGGUGGUGUUCCUGGUGUUUUUGCUGGUUGUUCUCCACCGAACAUUUCGACGUGGCGGCACUUAACACCACGCAUCAUUUUAAUUAUUU
((((.((((.(((((((...(((((..(..((.(.(((((......)))))...).).)..)..))))).)))))))))))))))........... ( -29.60)
>DroYak_CAF1 5548 96 + 1
GUGGCUGUGGUGGUAUUCCUGGUGUUUCUGCUGGCUGUUCUCCACCGCGAAUUUCGACGUGGCGGCACUUAACACCACGCAUCAUUUUAAUUAUUU
((((.((((((((.((..(..((......))..)..))...))))))))......(.(((((.(........).)))))).))))........... ( -26.10)
>consensus
GUGGCUGUGGUGGUGUUCCUGGUGUUUCUGCUGGUUGUUCUCCACCGAACUUUUCGACGUGGCGGCACUUAACACCACGCAUCAUUUUAAUUAUUU
((((.((..(((((((...(((((((..(((((........((((((((...))))..)))))))))...))))))).)))))))..)).)))).. (-24.78 = -24.90 +   0.12)

alignment

secondary structure

dotplot

Window 2

Location	9,682,042 – 9,682,138
Length	96
Sequences	5
Columns	96
Reading direction	reverse
Mean pairwise identity	95.62
Mean single sequence MFE	-22.38
Consensus MFE	-19.92
Energy contribution	-19.60
Covariance contribution	-0.32
Combinations/Pair	1.11
Mean z-score	-1.26
Structure conservation index	0.89
SVM decision value	0.27
SVM RNA-class probability	0.660351
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9682042 96 - 27905053
AAAUAAUUAAAAUGAUGCGUGGUGUUAAGUGCCGCCACGUCGAAAAGUUCGGUGGAGAACAACCAGCAGAAACACCAGGAACAUCACCACAGCCAC
............((((((.(((((((..((.(((((((........))..)))))...))...(....).))))))).)..))))).......... ( -21.10)
>DroSec_CAF1 6266 96 - 1
AAAUAAUUAAAAUGAUGCGUGGUGUUAAGUGCCGCCACGUCGAAAAGUUCGGUGGAGAACAACCAGCAGAAACACCAGGAACACCACCACAGCCAC
............((.((.((((((((..((.(((((((........))..)))))...))..((.............))))))))))))))..... ( -22.22)
>DroSim_CAF1 5305 96 - 1
AAAUAAUUAAAAUGAUGCGUGGUGUUAAGUGCCGCCACGUCGAAAAGUUCGGUGGAGAACAACCAGCAGAAACACCAGGAACACCACCACUGCCAC
...............((.((((((((..((.(((((((........))..)))))...))..((.............))))))))))))....... ( -21.42)
>DroEre_CAF1 6033 96 - 1
AAAUAAUUAAAAUGAUGCGUGGUGUUAAGUGCCGCCACGUCGAAAUGUUCGGUGGAGAACAACCAGCAAAAACACCAGGAACACCACCACAGUCAC
............((((..((((((((..((.(((((((((....))))..)))))...))..((.............))))))))))....)))). ( -23.92)
>DroYak_CAF1 5548 96 - 1
AAAUAAUUAAAAUGAUGCGUGGUGUUAAGUGCCGCCACGUCGAAAUUCGCGGUGGAGAACAGCCAGCAGAAACACCAGGAAUACCACCACAGCCAC
............((.((.((((((((..((.(((((.((........)).)))))...))..((.............))))))))))))))..... ( -23.22)
>consensus
AAAUAAUUAAAAUGAUGCGUGGUGUUAAGUGCCGCCACGUCGAAAAGUUCGGUGGAGAACAACCAGCAGAAACACCAGGAACACCACCACAGCCAC
...............((.((((((((..((.(((((..............)))))...))..((.............))))))))))))....... (-19.92 = -19.60 +  -0.32)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:05:11 2006