Locus 7769

Sequence ID	3R_DroMel_CAF1
Location	20,812,677 – 20,812,772
Length	95
Max. P	0.880646

overview

Window 1

Location	20,812,677 – 20,812,772
Length	95
Sequences	6
Columns	108
Reading direction	forward
Mean pairwise identity	83.15
Mean single sequence MFE	-36.66
Consensus MFE	-22.62
Energy contribution	-23.23
Covariance contribution	0.61
Combinations/Pair	1.25
Mean z-score	-2.61
Structure conservation index	0.62
SVM decision value	0.28
SVM RNA-class probability	0.664393
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20812677 95 + 27905053
UAACUGCCACGCGCCACGGCCCAGACUGCCUUUUG------GCCUUUUGGUCUCUUGGCCACGG-------CCAUUGUGCAAAUAGUUGCCGCAUGCACAGGCAGAAA
...(((((..((((((.((.(((((..(((....)------))..))))).).).))))..(((-------(.(((((....))))).))))...))...)))))... ( -36.30)
>DroSec_CAF1 28332 95 + 1
UAACUGCCACGCGCCGCGGCCCAGACUGCCUUUUG------GCCUUUUGGUCUCUUGGCCACGG-------CCAUUGUGCAAAUAGUUGCAGCAUGCACAGGCAGAAA
...(((((..(.((((.((((.((((((((....)------)).....)))))...)))).)))-------))..((((((.............)))))))))))... ( -40.72)
>DroSim_CAF1 28287 95 + 1
UAACUGCCACGCGCCGCGGCCCAGACUGCCUUUUG------GCCUUUUGGUCUCUUGGCCACGG-------CCAUUGUGCAAAUAGUUGCCGUAUGCACAGGCAGAAA
...(((((..(.((((.((((.((((((((....)------)).....)))))...)))).)))-------))..((((((.((.......)).)))))))))))... ( -41.30)
>DroEre_CAF1 26062 95 + 1
UAACUGCCACGCGCCGCGGCCCAGACUGCCUUUUG------GCCUUUUGGUCUCUUGGCCACGG-------CCAUUGUGCAAAUAGUUGCCGCAUGCACAGGCAAAAA
....((((..(.((((.((((.((((((((....)------)).....)))))...)))).)))-------))..((((((.............)))))))))).... ( -37.42)
>DroYak_CAF1 21597 95 + 1
UAACUGCCACGCGCCGCGGCCCAGACUGCCUUUUG------GCCUUUUGGUCUCUUGGCCACGG-------CCAUUGUGCAAAUAGUUGCGGCAUGCACAGGCAGAAA
...(((((..((((((((((......(((.(..((------(((...(((((....))))).))-------)))..).)))....))))))))..))...)))))... ( -41.60)
>DroAna_CAF1 23175 99 + 1
AGCUUGCCACGCGCCACAUCCCAGACGACGUUGUUGUUGCUGUUUUUCAGCCUUUCGGCCAUGGCCGUUCGCCAUUGUGCAAAUAGUUUCAGU-----CAGUCG----
...((((.(((.(((........((((((...))))))((((.....)))).....))))(((((.....))))).))))))...........-----......---- ( -22.60)
>consensus
UAACUGCCACGCGCCGCGGCCCAGACUGCCUUUUG______GCCUUUUGGUCUCUUGGCCACGG_______CCAUUGUGCAAAUAGUUGCCGCAUGCACAGGCAGAAA
...(((((.....(((.((((.(((................(((....))).))).)))).)))...........((((((.............)))))))))))... (-22.62 = -23.23 +   0.61)

alignment

secondary structure

dotplot

Window 2

Location	20,812,677 – 20,812,772
Length	95
Sequences	6
Columns	108
Reading direction	reverse
Mean pairwise identity	83.15
Mean single sequence MFE	-41.62
Consensus MFE	-26.46
Energy contribution	-27.05
Covariance contribution	0.59
Combinations/Pair	1.20
Mean z-score	-3.51
Structure conservation index	0.64
SVM decision value	0.91
SVM RNA-class probability	0.880646
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20812677 95 - 27905053
UUUCUGCCUGUGCAUGCGGCAACUAUUUGCACAAUGG-------CCGUGGCCAAGAGACCAAAAGGC------CAAAAGGCAGUCUGGGCCGUGGCGCGUGGCAGUUA
...((((((((((.((((((......((((....(((-------((.(((........)))...)))------))....)))).....))))))))))).)))))... ( -42.20)
>DroSec_CAF1 28332 95 - 1
UUUCUGCCUGUGCAUGCUGCAACUAUUUGCACAAUGG-------CCGUGGCCAAGAGACCAAAAGGC------CAAAAGGCAGUCUGGGCCGCGGCGCGUGGCAGUUA
...(((((((((((.............))))))((((-------((((((((...((((......((------(....))).)))).))))))))).))))))))... ( -44.02)
>DroSim_CAF1 28287 95 - 1
UUUCUGCCUGUGCAUACGGCAACUAUUUGCACAAUGG-------CCGUGGCCAAGAGACCAAAAGGC------CAAAAGGCAGUCUGGGCCGCGGCGCGUGGCAGUUA
...(((((((((((...(....)....))))))((((-------((((((((...((((......((------(....))).)))).))))))))).))))))))... ( -46.30)
>DroEre_CAF1 26062 95 - 1
UUUUUGCCUGUGCAUGCGGCAACUAUUUGCACAAUGG-------CCGUGGCCAAGAGACCAAAAGGC------CAAAAGGCAGUCUGGGCCGCGGCGCGUGGCAGUUA
...(((((((((((...(....)....))))))((((-------((((((((...((((......((------(....))).)))).))))))))).))))))))... ( -44.40)
>DroYak_CAF1 21597 95 - 1
UUUCUGCCUGUGCAUGCCGCAACUAUUUGCACAAUGG-------CCGUGGCCAAGAGACCAAAAGGC------CAAAAGGCAGUCUGGGCCGCGGCGCGUGGCAGUUA
...(((((((((((.............))))))((((-------((((((((...((((......((------(....))).)))).))))))))).))))))))... ( -44.02)
>DroAna_CAF1 23175 99 - 1
----CGACUG-----ACUGAAACUAUUUGCACAAUGGCGAACGGCCAUGGCCGAAAGGCUGAAAAACAGCAACAACAACGUCGUCUGGGAUGUGGCGCGUGGCAAGCU
----......-----..........(((((......)))))..(((((((((.....((((.....)))).......(((((......)))))))).))))))..... ( -28.80)
>consensus
UUUCUGCCUGUGCAUGCGGCAACUAUUUGCACAAUGG_______CCGUGGCCAAGAGACCAAAAGGC______CAAAAGGCAGUCUGGGCCGCGGCGCGUGGCAGUUA
...((((((((((.....((((....))))...............(((((((...((((.......................)))).)))))))))))).)))))... (-26.46 = -27.05 +   0.59)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:54:16 2006