Locus 8094

Sequence ID	3L_DroMel_CAF1
Location	21,281,581 – 21,281,701
Length	120
Max. P	0.993635

overview

Window 2

Location	21,281,581 – 21,281,701
Length	120
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	90.42
Mean single sequence MFE	-45.56
Consensus MFE	-41.88
Energy contribution	-42.12
Covariance contribution	0.25
Combinations/Pair	1.15
Mean z-score	-2.60
Structure conservation index	0.92
SVM decision value	2.41
SVM RNA-class probability	0.993635
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21281581 120 + 23771897
GCACCUAAAAAGUGAAACUCUCUAUUUGCCCGCUGUUAUGUGCGUUGUUGGUCUAUUGCAUCGGCAGUGGGCAUGGUAUGCAAAAGCAGUGCGGUUGCAGUCGCUUCGCUCUUGUGUCAU
((((...((.((((((...........((((((((((...(((((.....(((((((((....))))))))).....)))))..))))))).))).((....)))))))).))))))... ( -38.50)
>DroSec_CAF1 39811 120 + 1
GCACCUAAAGAGUGGUAAAGAGUAUUUGCCCGCUGCUGUGCGCGUUGUUGGUCUAUUGCAUCGGCAGUGGGCAUGGUAUGCAAAAGCAGUGCGGUUGCAGUUGCUUCGCUCUUGUGUCAU
((((...(((((((.......((((.((((((((((((((((..............)))).))))))))))))....))))..(((((((((....))).)))))))))))))))))... ( -47.44)
>DroSim_CAF1 42067 120 + 1
GCACCUAAAGAGUGGUAAAGAGUAUUUGCCCGCUGCUGUGUGCGUUGUUGGUCUAUUGCAUCGGCAGUGGGCAUGGUAUGCAAAAGCAGUGCGGUUGCAGUUGCUUCGCUCUUGUGUCAU
((((...(((((((.....(((((.((((((((.(((((.(((((.....(((((((((....))))))))).....)))))...)))))))))..)))).))))))))))))))))... ( -49.40)
>DroEre_CAF1 41086 117 + 1
GCACCUAGAGAGUAUCACU--CUA-UUGUCCGCUGCUGUGUGCGCUGUUGGUCUAUUGCAUCGGCAGUGGGCAUGGUAUGCAAAAGCAGUGCGGUUGCAGUCGCCUCGCUUUUGUGUCAU
..(((...((((.....))--)).-.((((((((((((.(((((.((......)).))))))))))))))))).)))((((((((((((.((((......)))))).))))))))))... ( -46.90)
>consensus
GCACCUAAAGAGUGGUAAAGACUAUUUGCCCGCUGCUGUGUGCGUUGUUGGUCUAUUGCAUCGGCAGUGGGCAUGGUAUGCAAAAGCAGUGCGGUUGCAGUCGCUUCGCUCUUGUGUCAU
((((...((((((((...........((((((((((((.(((((.((......)).))))))))))))))))).(((.(((((..((...))..)))))...)))))))))))))))... (-41.88 = -42.12 +   0.25)

alignment

secondary structure

dotplot

Window 3

Location	21,281,581 – 21,281,701
Length	120
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	90.42
Mean single sequence MFE	-32.75
Consensus MFE	-26.93
Energy contribution	-26.62
Covariance contribution	-0.31
Combinations/Pair	1.15
Mean z-score	-1.86
Structure conservation index	0.82
SVM decision value	0.72
SVM RNA-class probability	0.833185
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21281581 120 - 23771897
AUGACACAAGAGCGAAGCGACUGCAACCGCACUGCUUUUGCAUACCAUGCCCACUGCCGAUGCAAUAGACCAACAACGCACAUAACAGCGGGCAAAUAGAGAGUUUCACUUUUUAGGUGC
......((((((((..(((........)))..))))))))..((((.(((((.(((....(((..............))).....))).)))))..(((((((.....))))))))))). ( -34.54)
>DroSec_CAF1 39811 120 - 1
AUGACACAAGAGCGAAGCAACUGCAACCGCACUGCUUUUGCAUACCAUGCCCACUGCCGAUGCAAUAGACCAACAACGCGCACAGCAGCGGGCAAAUACUCUUUACCACUCUUUAGGUGC
.......((((((((((((..(((....))).))).)))))......(((((.((((.(.(((................)))).)))).))))).....))))((((........)))). ( -32.79)
>DroSim_CAF1 42067 120 - 1
AUGACACAAGAGCGAAGCAACUGCAACCGCACUGCUUUUGCAUACCAUGCCCACUGCCGAUGCAAUAGACCAACAACGCACACAGCAGCGGGCAAAUACUCUUUACCACUCUUUAGGUGC
.......((((((((((((..(((....))).))).)))))......(((((.((((.(.(((..............)))..).)))).))))).....))))((((........)))). ( -31.64)
>DroEre_CAF1 41086 117 - 1
AUGACACAAAAGCGAGGCGACUGCAACCGCACUGCUUUUGCAUACCAUGCCCACUGCCGAUGCAAUAGACCAACAGCGCACACAGCAGCGGACAA-UAG--AGUGAUACUCUCUAGGUGC
......((((((((..(((........)))..))))))))..((((.((.((.((((.(.(((..............)))..).)))).)).)).-(((--((.......))))))))). ( -32.04)
>consensus
AUGACACAAGAGCGAAGCAACUGCAACCGCACUGCUUUUGCAUACCAUGCCCACUGCCGAUGCAAUAGACCAACAACGCACACAGCAGCGGGCAAAUACUCAGUACCACUCUUUAGGUGC
....(((....((((((((..(((....))).))).)))))......(((((.((((.(.(((..............)))..).)))).)))))......................))). (-26.93 = -26.62 +  -0.31)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:06:10 2006