Locus 6544

Sequence ID X_DroMel_CAF1
Location 16,379,509 – 16,379,749
Length 240
Max. P 0.694346
window10681 window10682

overview

Window 1

Location 16,379,509 – 16,379,629
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 96.67
Mean single sequence MFE -36.37
Consensus MFE -32.27
Energy contribution -32.17
Covariance contribution -0.11
Combinations/Pair 1.06
Mean z-score -2.06
Structure conservation index 0.89
SVM decision value 0.34
SVM RNA-class probability 0.694346
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16379509 120 + 22224390
CUUUACUUCGUUAUAAUUUGAUGAUGUGGGGUGGAGGUAGAAAGCAGUCAGCCAGAAUUCUGCCUCCAUAAAUCCAUGGUCAGAGAACAAUUUGGCUAGGUCAGCAUAGUUUGCAGACAU
((((((.((((((.....)))))).))))))(((((((((((.((.....)).....)))))))))))........((((((((......)))))))).(((.(((.....))).))).. ( -39.40)
>DroSec_CAF1 559 120 + 1
CUUCACUUCGUUAUAAUUUGAUGAUGUGGGGUGGAGAUAGAAAGCAGUCAGCCAGAAUUCUGCCUCCAUAAACCCAUGGUCGGAGAACAAUUUGGCUAGGUCAGCAUAGCUUGCAGACAU
((((((((((((((......)))))..)))))))))..........((((((((((.((((.(..((((......))))..).))))...)))))))......(((.....))).))).. ( -34.90)
>DroSim_CAF1 597 120 + 1
CUUCACUUCGUUAUAAUUUGAUAAUGUGGGGUGGAGAUAGAAAGCAGUCAGCCAGAAUUCUGCCUCCAUAAAUCCAUGGUCGGAGAACAAUUUGGCUAGGUCAGCAUAGCUUGCAGACAU
((((((((((((((......)))))..)))))))))..........((((((((((.((((.(..((((......))))..).))))...)))))))......(((.....))).))).. ( -34.80)
>consensus
CUUCACUUCGUUAUAAUUUGAUGAUGUGGGGUGGAGAUAGAAAGCAGUCAGCCAGAAUUCUGCCUCCAUAAAUCCAUGGUCGGAGAACAAUUUGGCUAGGUCAGCAUAGCUUGCAGACAU
((((((((((((((......)))))..)))))))))..........((((((((((.((((.(..((((......))))..).))))...)))))))......(((.....))).))).. (-32.27 = -32.17 +  -0.11)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 2

Location 16,379,629 – 16,379,749
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 95.00
Mean single sequence MFE -24.50
Consensus MFE -21.11
Energy contribution -20.67
Covariance contribution -0.44
Combinations/Pair 1.09
Mean z-score -1.86
Structure conservation index 0.86
SVM decision value -0.05
SVM RNA-class probability 0.510174
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16379629 120 + 22224390
CUUUUGCUCCAAAUCGAGCAUAAAAUCAACGGUUAACCCGGGAUGAUAUCUCCACAUUUCUAAUGCAUUUAUUUGUUGCCCAAUAAUUUUCAGCAGCAGAGCAAUCUUAGCAAAUCUCCA
...((((((........((((........(((.....)))(((.(....)))).........)))).......((((((..((.....))..))))))))))))................ ( -22.80)
>DroSec_CAF1 679 120 + 1
CUUUUGCUCCAAAUCAAGCAUAAAAUCAACGGUUAAUCCGGAGUGAUAUCUCCAUAUUUCUAAUGCAUUUAUUUGUUGCCCAAUGAUUUUCAGCAGCAGGGCAAUCUUAGCAAACCUCCA
..((((((.(((((.((((((.........((.....))((((......)))).........)))).)).)))))((((((..((........))...))))))....))))))...... ( -27.00)
>DroSim_CAF1 717 120 + 1
CUUUUGCUCCAAAUCAAGCAUAAAAUCAACGGUUAAUCCGGAAUGAUAUCUCCAUGUUUCUAAUGCAUUUAUUUGUUGCCCAAUGAUUUUCAGCAGCAGGGCAAUCUUAGCAAACCUCCA
..((((((.(((((.((((((.........((.....))(((........))).........)))).)).)))))((((((..((........))...))))))....))))))...... ( -23.70)
>consensus
CUUUUGCUCCAAAUCAAGCAUAAAAUCAACGGUUAAUCCGGAAUGAUAUCUCCAUAUUUCUAAUGCAUUUAUUUGUUGCCCAAUGAUUUUCAGCAGCAGGGCAAUCUUAGCAAACCUCCA
...((((((........((((.........((.....))(((........))).........)))).......((((((..((.....))..))))))))))))................ (-21.11 = -20.67 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:16:24 2006