Locus 346

Sequence ID 2L_DroMel_CAF1
Location 1,060,704 – 1,060,795
Length 91
Max. P 0.982958
window549 window550

overview

Window 9

Location 1,060,704 – 1,060,795
Length 91
Sequences 4
Columns 103
Reading direction forward
Mean pairwise identity 88.53
Mean single sequence MFE -32.38
Consensus MFE -27.77
Energy contribution -27.78
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -2.53
Structure conservation index 0.86
SVM decision value 1.93
SVM RNA-class probability 0.982958
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1060704 91 + 22407834
UCAUCGUUGGCAACGUUUUGGGGCAAUGACA-ACACAGCAUAACGCAACGC-----------AAACAGCAGCGACAGCUGCGAUGUUGCCUGUUGCCAAGCGA
...(((((((((((......((((((((.(.-.....((.....)).....-----------.....(((((....)))))).)))))))))))))).))))) ( -32.90)
>DroSec_CAF1 42942 87 + 1
UCAUCGAUGGCAACGUUUUGGGGCAAUGACAAACACAGCACAGCG-----C-----------AAACAGCAGCGACAGCUGCGAUGUUGCCUGUUGCCAAGCGA
...(((.(((((((......((((((((.(.......((.....)-----)-----------.....(((((....)))))).)))))))))))))))..))) ( -31.20)
>DroSim_CAF1 34603 92 + 1
UCAUCGAUGGCAACGUUUUGGGGCAAUGACAAACACAGCACAGCGCAACGC-----------AAACAGCAGCGACAGCUGCGAUGUUGCCUGUUGCCAAGCGA
...(((.(((((((......((((((((.(............(((...)))-----------.....(((((....)))))).)))))))))))))))..))) ( -32.00)
>DroEre_CAF1 40021 102 + 1
UCAUCGAUGGCAACGUUUUGGGGCAAUGACA-ACACAGCGCAGCACAACGCAACACAAACAGAAACAGCAGCGACAGCUGCGAUGUUGCCUGUUGCCAAGCGA
...(((.((((((((((.((..((..((...-...))..))..)).)))(((((((.....).....(((((....)))))..))))))..)))))))..))) ( -33.40)
>consensus
UCAUCGAUGGCAACGUUUUGGGGCAAUGACA_ACACAGCACAGCGCAACGC___________AAACAGCAGCGACAGCUGCGAUGUUGCCUGUUGCCAAGCGA
...(((.(((((((......((((((((.(.......(.....).......................(((((....)))))).)))))))))))))))..))) (-27.77 = -27.78 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 1,060,704 – 1,060,795
Length 91
Sequences 4
Columns 103
Reading direction reverse
Mean pairwise identity 88.53
Mean single sequence MFE -33.73
Consensus MFE -26.12
Energy contribution -26.62
Covariance contribution 0.50
Combinations/Pair 1.07
Mean z-score -2.21
Structure conservation index 0.77
SVM decision value 1.02
SVM RNA-class probability 0.901244
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1060704 91 - 22407834
UCGCUUGGCAACAGGCAACAUCGCAGCUGUCGCUGCUGUUU-----------GCGUUGCGUUAUGCUGUGU-UGUCAUUGCCCCAAAACGUUGCCAACGAUGA
(((.((((((((.(((((((.((((((...((((((.....-----------)))..)))....)))))).-)))...)))).......)))))))))))... ( -34.70)
>DroSec_CAF1 42942 87 - 1
UCGCUUGGCAACAGGCAACAUCGCAGCUGUCGCUGCUGUUU-----------G-----CGCUGUGCUGUGUUUGUCAUUGCCCCAAAACGUUGCCAUCGAUGA
(((..(((((((.(((((((.((((((.(.(((........-----------)-----)))...))))))..)))...)))).......))))))).)))... ( -30.40)
>DroSim_CAF1 34603 92 - 1
UCGCUUGGCAACAGGCAACAUCGCAGCUGUCGCUGCUGUUU-----------GCGUUGCGCUGUGCUGUGUUUGUCAUUGCCCCAAAACGUUGCCAUCGAUGA
(((..(((((((.(((((((.((((((.(.((((((.....-----------)))..))))...))))))..)))...)))).......))))))).)))... ( -31.90)
>DroEre_CAF1 40021 102 - 1
UCGCUUGGCAACAGGCAACAUCGCAGCUGUCGCUGCUGUUUCUGUUUGUGUUGCGUUGUGCUGCGCUGUGU-UGUCAUUGCCCCAAAACGUUGCCAUCGAUGA
(((..(((((((.((((((((((((((...(((.((.............)).)))....))))))..))))-)))).(((...)))...))))))).)))... ( -37.92)
>consensus
UCGCUUGGCAACAGGCAACAUCGCAGCUGUCGCUGCUGUUU___________GCGUUGCGCUGUGCUGUGU_UGUCAUUGCCCCAAAACGUUGCCAUCGAUGA
(((..(((((((.((((((((.(((((....)))))................((((......)))).)))).)))).(((...)))...))))))).)))... (-26.12 = -26.62 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:33:36 2006