Locus 1159

Sequence ID	3L_DroMel_CAF1
Location	3,355,796 – 3,355,901
Length	105
Max. P	0.615336

overview

Window 4

Location	3,355,796 – 3,355,901
Length	105
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	85.88
Mean single sequence MFE	-47.08
Consensus MFE	-37.33
Energy contribution	-37.28
Covariance contribution	-0.05
Combinations/Pair	1.25
Mean z-score	-1.91
Structure conservation index	0.79
SVM decision value	0.11
SVM RNA-class probability	0.586611
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3355796 105 + 23771897
CCGCCGGGUGGCGCUCCUGCUGCACC------UCCCAUCUGGCGGUACGGGGAACCGCUUCUUUUAAAGCCACCGCCCGGCGGAAGGCCCAUGCCA---------UGAUGGUGACGGUAC
((((((((.((.((.......)).))------.)))....((((((..((....))((((......)))).)))))).)))))...(((...(((.---------....)))...))).. ( -45.90)
>DroSec_CAF1 22977 105 + 1
CCGCCGGGUGGCGCUCCCGCUGCACC------UCCCAUCUGGCGGUACGGAGAACCGCUUCUCCUAAAGCCACCGCCCGGCGGAAGGCCCAUGCCA---------UGAUGGUGACGGUAC
(((((((((((.((.......))...------.......((((..((.((((((....))))))))..)))))))))))))))...(((...(((.---------....)))...))).. ( -47.60)
>DroSim_CAF1 20665 105 + 1
CCGCCGGGUGGCGCUCCCGCUGCACC------UCCCAUCUGGCGGUACGGAGAACCGCUUCUCUUAAAGCCACCGCCCGGCGGAAGGCCCAUGCCA---------UGAUGGUGACGGUAC
(((((((((((.((.......))...------.......((((..((.((((((....))))))))..)))))))))))))))...(((...(((.---------....)))...))).. ( -44.90)
>DroEre_CAF1 21556 105 + 1
CCGCCGGGUGGUGCUCCUGAUGCACC------UCCCAUCUGGCGGUAGGGAGAACCGCUUCUCUUAAAGCCACCGCCCGGCGGAAGGCCCAUGCCA---------UGAUGGUGACGGUAC
((((((((((((((((((.....(((------.((.....)).))).)))))....((((......)))))))))))))))))...(((...(((.---------....)))...))).. ( -49.00)
>DroYak_CAF1 21551 105 + 1
CCGCCGGGUGGUGCUCCUGCUGCACC------UCCCAUCUGGCGGUAGGGAGAACCGCUUCUCUUAAAGCCACCGCCCGGCGGAAGGCCCAUGCCA---------UGAUGGUGACGAUAC
(((((((((((((((((((((((...------.........))))))))(((((....)))))....)).)))))))))))))..(((....))).---------...((....)).... ( -52.10)
>DroAna_CAF1 23691 117 + 1
CCACCUGGUG---CUCCGCCAGCACCACCAGCACCCAUCUGGCGAUAGGGUGAGCCACUACGCUUGAAGCCACCACCUGGCGGUAUGCCCAUACCACCAUGAUGAUGAUGGUGGCGAUAC
.....(((((---((.....)))))))....((((((((....))).))))).(((((((.((.....))((.(((.(((.(((((....))))).))).).)).)).)))))))..... ( -43.00)
>consensus
CCGCCGGGUGGCGCUCCUGCUGCACC______UCCCAUCUGGCGGUACGGAGAACCGCUUCUCUUAAAGCCACCGCCCGGCGGAAGGCCCAUGCCA_________UGAUGGUGACGGUAC
(((((((((((.((.......))................((((..((.((((((....))))))))..)))))))))))))))...(((...((((............))))...))).. (-37.33 = -37.28 +  -0.05)

alignment

secondary structure

dotplot

Window 5

Location	3,355,796 – 3,355,901
Length	105
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	85.88
Mean single sequence MFE	-49.37
Consensus MFE	-43.38
Energy contribution	-42.55
Covariance contribution	-0.83
Combinations/Pair	1.29
Mean z-score	-1.48
Structure conservation index	0.88
SVM decision value	0.17
SVM RNA-class probability	0.615336
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3355796 105 - 23771897
GUACCGUCACCAUCA---------UGGCAUGGGCCUUCCGCCGGGCGGUGGCUUUAAAAGAAGCGGUUCCCCGUACCGCCAGAUGGGA------GGUGCAGCAGGAGCGCCACCCGGCGG
(..((((..((....---------.)).))))..)..((((((((.(((.(((((....))))).(((((..(((((.((.....)).------)))))....)))))))).)))))))) ( -48.20)
>DroSec_CAF1 22977 105 - 1
GUACCGUCACCAUCA---------UGGCAUGGGCCUUCCGCCGGGCGGUGGCUUUAGGAGAAGCGGUUCUCCGUACCGCCAGAUGGGA------GGUGCAGCGGGAGCGCCACCCGGCGG
(((((.((.(((((.---------((((..(((((..((((...)))).)))))..((((((....)))))).....)))))))))))------))))).((....))(((....))).. ( -51.20)
>DroSim_CAF1 20665 105 - 1
GUACCGUCACCAUCA---------UGGCAUGGGCCUUCCGCCGGGCGGUGGCUUUAAGAGAAGCGGUUCUCCGUACCGCCAGAUGGGA------GGUGCAGCGGGAGCGCCACCCGGCGG
(..((((..((....---------.)).))))..)..((((((((.(((.(((((....))))).((((((((((((.((.....)).------))))).).))))))))).)))))))) ( -49.60)
>DroEre_CAF1 21556 105 - 1
GUACCGUCACCAUCA---------UGGCAUGGGCCUUCCGCCGGGCGGUGGCUUUAAGAGAAGCGGUUCUCCCUACCGCCAGAUGGGA------GGUGCAUCAGGAGCACCACCCGGCGG
(..((((..((....---------.)).))))..)..(((((.((((((((((((....)))))((....)).)))))))....(((.------(((((.......))))).)))))))) ( -46.70)
>DroYak_CAF1 21551 105 - 1
GUAUCGUCACCAUCA---------UGGCAUGGGCCUUCCGCCGGGCGGUGGCUUUAAGAGAAGCGGUUCUCCCUACCGCCAGAUGGGA------GGUGCAGCAGGAGCACCACCCGGCGG
...............---------.(((....)))..(((((.((((((((((((....)))))((....)).)))))))....(((.------(((((.......))))).)))))))) ( -45.80)
>DroAna_CAF1 23691 117 - 1
GUAUCGCCACCAUCAUCAUCAUGGUGGUAUGGGCAUACCGCCAGGUGGUGGCUUCAAGCGUAGUGGCUCACCCUAUCGCCAGAUGGGUGCUGGUGGUGCUGGCGGAG---CACCAGGUGG
.....(((((...(((((((.(((((((((....))))))))))))))))((.....))...))))).(((((((.((((.....)))).)))(((((((.....))---))))))))). ( -54.70)
>consensus
GUACCGUCACCAUCA_________UGGCAUGGGCCUUCCGCCGGGCGGUGGCUUUAAGAGAAGCGGUUCUCCCUACCGCCAGAUGGGA______GGUGCAGCAGGAGCGCCACCCGGCGG
...(((((.(((((..........((((..((.....))))))((((((((((((....)))))((....)).))))))).)))))........(((((.......)))))....))))) (-43.38 = -42.55 +  -0.83)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:00:39 2006