Locus 8455

Sequence ID 3R_DroMel_CAF1
Location 22,554,228 – 22,554,321
Length 93
Max. P 0.966225
window13605 window13606

overview

Window 5

Location 22,554,228 – 22,554,321
Length 93
Sequences 4
Columns 93
Reading direction forward
Mean pairwise identity 95.16
Mean single sequence MFE -29.55
Consensus MFE -27.50
Energy contribution -27.38
Covariance contribution -0.12
Combinations/Pair 1.04
Mean z-score -2.27
Structure conservation index 0.93
SVM decision value 1.59
SVM RNA-class probability 0.966225
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22554228 93 + 27905053
CCCAACUGGCCAGCUCCUAUCCAGCUCGGCUCGAGCGGAAGAAACAGCAAUCGGGCAAACAAACAGCGCUAUAAAAUGCGAAAACAGAGUGGG
((((.((((((.(((.((.(((.(((((...))))))))))....))).....)))..........(((........)))....)))..)))) ( -26.30)
>DroSec_CAF1 2461 93 + 1
CCCACCUGGCCAGCUCCUAUCCAGCUCGUCUCGAGCGGAAGAAACAGCAAUUGGGCAAACAAACAGCGCCAUAAAAUGCGAAAGCAGAGUGGG
(((((.(((((.(((.((.(((.(((((...))))))))))....)))..(((......)))...).)))).....(((....)))..))))) ( -30.90)
>DroSim_CAF1 2422 93 + 1
CCCACCUGGCCAGCUCCUAUCCAGCUCGUCUCGAGCGGAAGAAACAGCAAUUGGGCAAACAAACAGCGCCAUAAAAUGCGAGAACAGAGUGGG
((((((((.....(((...(((.(((((...)))))))).......(((.((.(((...........)))...)).))))))..))).))))) ( -30.60)
>DroYak_CAF1 2493 93 + 1
CCCACCUGGCCAGUUCCUAUCCAGCUCGGCUCGAGCGGAAGAAACAACAAUUGGGCAAACAAACAGCGCCAUAAAAUGCGAGAGCAGAGUGGG
(((((.(((((.(((.((.(((.(((((...)))))))))).))).....(((......)))...).)))).....(((....)))..))))) ( -30.40)
>consensus
CCCACCUGGCCAGCUCCUAUCCAGCUCGGCUCGAGCGGAAGAAACAGCAAUUGGGCAAACAAACAGCGCCAUAAAAUGCGAAAACAGAGUGGG
(((((((((((.(((.((.(((.(((((...))))))))))....))).....)))..........(((........)))....))).))))) (-27.50 = -27.38 +  -0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 22,554,228 – 22,554,321
Length 93
Sequences 4
Columns 93
Reading direction reverse
Mean pairwise identity 95.16
Mean single sequence MFE -32.27
Consensus MFE -29.91
Energy contribution -29.85
Covariance contribution -0.06
Combinations/Pair 1.10
Mean z-score -1.60
Structure conservation index 0.93
SVM decision value 0.41
SVM RNA-class probability 0.723391
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22554228 93 - 27905053
CCCACUCUGUUUUCGCAUUUUAUAGCGCUGUUUGUUUGCCCGAUUGCUGUUUCUUCCGCUCGAGCCGAGCUGGAUAGGAGCUGGCCAGUUGGG
.............(((........)))...........((((((((((((((((((((((((...))))).))).)))))).)).)))))))) ( -29.10)
>DroSec_CAF1 2461 93 - 1
CCCACUCUGCUUUCGCAUUUUAUGGCGCUGUUUGUUUGCCCAAUUGCUGUUUCUUCCGCUCGAGACGAGCUGGAUAGGAGCUGGCCAGGUGGG
((((((..(((...(((.....(((.((.........)))))..))).((((((((((((((...))))).))).)))))).)))..)))))) ( -33.80)
>DroSim_CAF1 2422 93 - 1
CCCACUCUGUUCUCGCAUUUUAUGGCGCUGUUUGUUUGCCCAAUUGCUGUUUCUUCCGCUCGAGACGAGCUGGAUAGGAGCUGGCCAGGUGGG
(((((.(((..(..(((.....(((.((.........)))))..))).((((((((((((((...))))).))).)))))).)..)))))))) ( -34.40)
>DroYak_CAF1 2493 93 - 1
CCCACUCUGCUCUCGCAUUUUAUGGCGCUGUUUGUUUGCCCAAUUGUUGUUUCUUCCGCUCGAGCCGAGCUGGAUAGGAACUGGCCAGGUGGG
((((((..(((...........(((.((.........)))))......((((((((((((((...))))).))).)))))).)))..)))))) ( -31.80)
>consensus
CCCACUCUGCUCUCGCAUUUUAUGGCGCUGUUUGUUUGCCCAAUUGCUGUUUCUUCCGCUCGAGACGAGCUGGAUAGGAGCUGGCCAGGUGGG
(((((.(((.............(((.((.........)))))...(((((((((((((((((...))))).))).)))))).))))))))))) (-29.91 = -29.85 +  -0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:11:47 2006