Locus 6813

Sequence ID	3L_DroMel_CAF1
Location	18,304,259 – 18,304,350
Length	91
Max. P	0.999873

overview

Window 9

Location	18,304,259 – 18,304,350
Length	91
Sequences	6
Columns	91
Reading direction	forward
Mean pairwise identity	97.44
Mean single sequence MFE	-21.18
Consensus MFE	-20.41
Energy contribution	-20.30
Covariance contribution	-0.11
Combinations/Pair	1.08
Mean z-score	-1.69
Structure conservation index	0.96
SVM decision value	2.76
SVM RNA-class probability	0.996864
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 18304259 91 + 23771897
CAAACAUUGCAAACGGUUUUUAUUGUUACUUUUAACUGCGCUGGCGUCUGUUUUUCGCCCGUGCGUCUGCAACUUUUGCAAUUUGCCAAAC
.....((((((((.((((......((((....)))).((((.((((.........)))).))))......))))))))))))......... ( -21.60)
>DroSec_CAF1 88143 91 + 1
CAAACAUUGCAAACGGUUUUUAUUGUUACUUUUAACUGCGCUGGCGUCUGUUUUUCGCCCGUGCGUCUGCAACUUUCGCAAUUUGCCAAAC
......(((((.((..........((((....)))).((((.((((.........)))).)))))).))))).....((.....))..... ( -20.40)
>DroSim_CAF1 97544 91 + 1
CAAACAUUGCAAACGGUUUUUAUUGUUACUUUUAACUGCGCUGGCGUCUGUUUUUCGCCCGUGCGUCUGCAACUUUUGCAAUUUACCAAAC
.....((((((((.((((......((((....)))).((((.((((.........)))).))))......))))))))))))......... ( -21.60)
>DroEre_CAF1 84894 91 + 1
CAAACAUUGCAAACGGUUUUUAUUGUUACUUUUAACUGCGCUGGCGUCUGUUUUUCGCCCGUGCGUCUGCAACUUUUGCAAUUUGCCAAAC
.....((((((((.((((......((((....)))).((((.((((.........)))).))))......))))))))))))......... ( -21.60)
>DroYak_CAF1 94567 91 + 1
CAAACAUUGCAAACGGUUUUUAUUGUUACUUUUAACUGCGCUGGCGUCUGUUUUUCGCCCGUGCGUCUGCAACUUUUGCAAUUUGCCAAAC
.....((((((((.((((......((((....)))).((((.((((.........)))).))))......))))))))))))......... ( -21.60)
>DroAna_CAF1 85390 91 + 1
CAAACAUUGCAAACGGUUUUUAUUGUUGCUUUUAACUGCGUUGGCGUCUGUUUUUCGCCCGUGCGUCUGCAACUUUUGCAAUUUGGACAAC
(((..((((((((.(((....)))(((((.....((.(((..((((.........))))..)))))..))))).)))))))))))...... ( -20.30)
>consensus
CAAACAUUGCAAACGGUUUUUAUUGUUACUUUUAACUGCGCUGGCGUCUGUUUUUCGCCCGUGCGUCUGCAACUUUUGCAAUUUGCCAAAC
.....((((((((.((((......((((....)))).((((.((((.........)))).))))......))))))))))))......... (-20.41 = -20.30 +  -0.11)

alignment

secondary structure

dotplot

Window 0

Location	18,304,259 – 18,304,350
Length	91
Sequences	6
Columns	91
Reading direction	reverse
Mean pairwise identity	97.44
Mean single sequence MFE	-23.83
Consensus MFE	-23.12
Energy contribution	-23.32
Covariance contribution	0.20
Combinations/Pair	1.04
Mean z-score	-2.36
Structure conservation index	0.97
SVM decision value	4.33
SVM RNA-class probability	0.999873
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 18304259 91 - 23771897
GUUUGGCAAAUUGCAAAAGUUGCAGACGCACGGGCGAAAAACAGACGCCAGCGCAGUUAAAAGUAACAAUAAAAACCGUUUGCAAUGUUUG
.............((((.(((((((((((.(.((((.........)))).).)).((((....))))..........))))))))).)))) ( -24.00)
>DroSec_CAF1 88143 91 - 1
GUUUGGCAAAUUGCGAAAGUUGCAGACGCACGGGCGAAAAACAGACGCCAGCGCAGUUAAAAGUAACAAUAAAAACCGUUUGCAAUGUUUG
.(((.((.....)).)))(((((((((((.(.((((.........)))).).)).((((....))))..........)))))))))..... ( -25.00)
>DroSim_CAF1 97544 91 - 1
GUUUGGUAAAUUGCAAAAGUUGCAGACGCACGGGCGAAAAACAGACGCCAGCGCAGUUAAAAGUAACAAUAAAAACCGUUUGCAAUGUUUG
.............((((.(((((((((((.(.((((.........)))).).)).((((....))))..........))))))))).)))) ( -24.00)
>DroEre_CAF1 84894 91 - 1
GUUUGGCAAAUUGCAAAAGUUGCAGACGCACGGGCGAAAAACAGACGCCAGCGCAGUUAAAAGUAACAAUAAAAACCGUUUGCAAUGUUUG
.............((((.(((((((((((.(.((((.........)))).).)).((((....))))..........))))))))).)))) ( -24.00)
>DroYak_CAF1 94567 91 - 1
GUUUGGCAAAUUGCAAAAGUUGCAGACGCACGGGCGAAAAACAGACGCCAGCGCAGUUAAAAGUAACAAUAAAAACCGUUUGCAAUGUUUG
.............((((.(((((((((((.(.((((.........)))).).)).((((....))))..........))))))))).)))) ( -24.00)
>DroAna_CAF1 85390 91 - 1
GUUGUCCAAAUUGCAAAAGUUGCAGACGCACGGGCGAAAAACAGACGCCAACGCAGUUAAAAGCAACAAUAAAAACCGUUUGCAAUGUUUG
.............((((.(((((((((((...((((.........))))...)).(((......)))..........))))))))).)))) ( -22.00)
>consensus
GUUUGGCAAAUUGCAAAAGUUGCAGACGCACGGGCGAAAAACAGACGCCAGCGCAGUUAAAAGUAACAAUAAAAACCGUUUGCAAUGUUUG
.............((((.(((((((((((.(.((((.........)))).).)).((((....))))..........))))))))).)))) (-23.12 = -23.32 +   0.20)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:30:29 2006