Locus 443

Sequence ID 2R_DroMel_CAF1
Location 2,551,843 – 2,551,954
Length 111
Max. P 0.987946
window849 window850

overview

Window 9

Location 2,551,843 – 2,551,954
Length 111
Sequences 3
Columns 112
Reading direction forward
Mean pairwise identity 94.93
Mean single sequence MFE -39.33
Consensus MFE -38.32
Energy contribution -38.10
Covariance contribution -0.22
Combinations/Pair 1.03
Mean z-score -2.79
Structure conservation index 0.97
SVM decision value 2.10
SVM RNA-class probability 0.987946
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 2551843 111 + 20766785
AGUGCAACGCUCUCUUUUGAGAGAGCGAGUGCGCUCUGUGUGGUUUAU-UUUGAUUGGGGAACAACAGUCCUCACGGGAAGAGAGAAAAACAAAACUUUUCCCGCUUUCAGU
((((((.((((((((....))))))))..))))))(((...(((....-......((((((.......)))))).((((((((............)))))))))))..))). ( -40.00)
>DroSec_CAF1 30211 111 + 1
AGUGCAGCGCUCUCUUUUGAGAGAGCGAGUGCGCUCUGUGUAGUUUAU-UUUGAUUGGGGAACAACAGUCCUCAGGGGGAGAGAGAAAAACAAAACUUUUCCCGCCUUCAGU
((((((.((((((((....))))))))..))))))(((.((.......-.....(((((((.......)))))))((((((((............))))))))))...))). ( -39.10)
>DroSim_CAF1 26958 112 + 1
AGUGCAGCGCUCUCUUUUGAGAGAGCGAGUGCGCUCCGUGUUGUUUUUAUUUGAUUGGGGAACAACAGUCCUCAGGGGGAGAGAGAAAAACAAAACUUUUCCCGCUUUCAGU
((((((.((((((((....))))))))..))))))...............(((((((((((.......)))))))((((((((............))))))))....)))). ( -38.90)
>consensus
AGUGCAGCGCUCUCUUUUGAGAGAGCGAGUGCGCUCUGUGUAGUUUAU_UUUGAUUGGGGAACAACAGUCCUCAGGGGGAGAGAGAAAAACAAAACUUUUCCCGCUUUCAGU
((((((.((((((((....))))))))..))))))...............((((.((((((.......)))))).((((((((............))))))))....)))). (-38.32 = -38.10 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 2,551,843 – 2,551,954
Length 111
Sequences 3
Columns 112
Reading direction reverse
Mean pairwise identity 94.93
Mean single sequence MFE -31.02
Consensus MFE -28.54
Energy contribution -28.10
Covariance contribution -0.44
Combinations/Pair 1.06
Mean z-score -2.18
Structure conservation index 0.92
SVM decision value 0.84
SVM RNA-class probability 0.864689
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 2551843 111 - 20766785
ACUGAAAGCGGGAAAAGUUUUGUUUUUCUCUCUUCCCGUGAGGACUGUUGUUCCCCAAUCAAA-AUAAACCACACAGAGCGCACUCGCUCUCUCAAAAGAGAGCGUUGCACU
.(((...(((((((.((............)).)))))))..((((....))))..........-..........)))((.(((..((((((((....)))))))).))).)) ( -33.00)
>DroSec_CAF1 30211 111 - 1
ACUGAAGGCGGGAAAAGUUUUGUUUUUCUCUCUCCCCCUGAGGACUGUUGUUCCCCAAUCAAA-AUAAACUACACAGAGCGCACUCGCUCUCUCAAAAGAGAGCGCUGCACU
.(((.(((.((((..((..........))...)))))))..((((....))))..........-..........)))((.(((..((((((((....)))))))).))).)) ( -29.40)
>DroSim_CAF1 26958 112 - 1
ACUGAAAGCGGGAAAAGUUUUGUUUUUCUCUCUCCCCCUGAGGACUGUUGUUCCCCAAUCAAAUAAAAACAACACGGAGCGCACUCGCUCUCUCAAAAGAGAGCGCUGCACU
.......((((((((((.....))))))))..(((((....))..(((((((...............))))))).)))))(((..((((((((....)))))))).)))... ( -30.66)
>consensus
ACUGAAAGCGGGAAAAGUUUUGUUUUUCUCUCUCCCCCUGAGGACUGUUGUUCCCCAAUCAAA_AUAAACAACACAGAGCGCACUCGCUCUCUCAAAAGAGAGCGCUGCACU
.(((..((.((((((((.....)))))))).)).....((.((((....).))).)).................)))((.(((..((((((((....)))))))).))).)) (-28.54 = -28.10 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:38:41 2006