Locus 5836

Sequence ID 3R_DroMel_CAF1
Location 15,287,854 – 15,288,014
Length 160
Max. P 0.788409
window9553 window9554

overview

Window 3

Location 15,287,854 – 15,287,974
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 92.67
Mean single sequence MFE -46.76
Consensus MFE -41.60
Energy contribution -41.28
Covariance contribution -0.32
Combinations/Pair 1.19
Mean z-score -1.29
Structure conservation index 0.89
SVM decision value 0.48
SVM RNA-class probability 0.752823
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15287854 120 - 27905053
UUGGAGAGAUUGGCGGAUCCGCCGAGGAAGAGGCUGCCGAUUUCCUUAAGGAGAAGAACACUGGCUGCGAGGCCAAGCCAGUAGUUGGCUUCAUUGCUGGACAGACUGCUCCACCGGGUC
((((.(((((((((((.(((.....))).....))))))))))).....((((.((....(..((...((((((((........))))))))...))..).....)).)))).))))... ( -44.00)
>DroSec_CAF1 40397 120 - 1
UCGGAGAGAUUGGCGGAUCCGCCGAGGAAGAUGCUGCCGAUUUUCUCAAGGAGAAGAACACUGGCUGCGAGGCCAAGCCAGUGGUGGGCUUCAUUGCUGGACAGACUGCUCCACCGGGUC
((((.((((((((((((((..(....)..))).)))))))...))))..((((.((.....(((((....))))).(((((..(((.....)))..)))).)...)).)))).))))... ( -46.90)
>DroSim_CAF1 41089 120 - 1
UUGGAGAAAUUGGCGGAUCCGCCGAGGAAGAUGCUGCCGAUUUUCUCAAGGAGAAGAACACUGGCUGCGAGGCCAAGCCAGUGGUGGGCUUCAUUGCUGGGCAGACUGCUCCACCGGGUC
.(((((...((((((....))))))........(((((..(((((((...))))))).((((((((.........))))))))...(((......))).)))))....)))))....... ( -46.80)
>DroEre_CAF1 36489 120 - 1
UCGGAGAGAUUGGCGGAUCCGCCGAGGAAGAGGCCGCCGAUUUUCUCAAGGAGAAAAACACAGGCUGCGAGGCCAAGCCAGUAGUUGGCUUCAUCGCAGGACAGACUGCUCCUCCGGGUC
((((((.((((((((....)))))).((.((((((...(.(((((((...))))))).)...((((((..(((...))).)))))))))))).))((((......))))))))))))... ( -50.70)
>DroYak_CAF1 39659 120 - 1
UUGGAGAGAUUGGUGGAUCCGCCGAGGAAGAAGCCGCCGAUUUCCUCAAGGAGAAGAACACAGGCUGCGAGGCCAAGCCAGUGGUUGGCUUCAUCGCCGGACAGACUGCUCCCCCAGGUC
(((..(((((((((((.(((.....))).....)))))))))))..)))((((.((......(((...((((((((.(....).))))))))...))).......)).))))........ ( -45.42)
>consensus
UUGGAGAGAUUGGCGGAUCCGCCGAGGAAGAGGCUGCCGAUUUUCUCAAGGAGAAGAACACUGGCUGCGAGGCCAAGCCAGUGGUUGGCUUCAUUGCUGGACAGACUGCUCCACCGGGUC
((((.(((((((((((.(((.....))).....))))))))))).....((((.......(((((...(((((((.((.....)))))))))...)))))........)))).))))... (-41.60 = -41.28 +  -0.32)

alignment

Postscript

secondary structure

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dotplot

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Window 4

Location 15,287,894 – 15,288,014
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 95.00
Mean single sequence MFE -40.01
Consensus MFE -36.00
Energy contribution -35.28
Covariance contribution -0.72
Combinations/Pair 1.17
Mean z-score -1.30
Structure conservation index 0.90
SVM decision value 0.58
SVM RNA-class probability 0.788409
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15287894 120 - 27905053
GUGUUUCUGUCCGACAAGGAGAUCAAGGGCAUUGUCAUGAUUGGAGAGAUUGGCGGAUCCGCCGAGGAAGAGGCUGCCGAUUUCCUUAAGGAGAAGAACACUGGCUGCGAGGCCAAGCCA
(((((..(.(((...(((((((((...((((.(.((..((((.....))))((((....))))......)).).)))))))))))))..))).)..)))))(((((....)))))..... ( -45.00)
>DroSec_CAF1 40437 120 - 1
GUAUUUCUGUCCGACAAGGAGAUCAAGGGCAUUGUCAUGAUCGGAGAGAUUGGCGGAUCCGCCGAGGAAGAUGCUGCCGAUUUUCUCAAGGAGAAGAACACUGGCUGCGAGGCCAAGCCA
....((((.(((....((((((((...((((((.((..((((.....))))((((....))))...)).))))))...))))))))...)))..))))...(((((....)))))..... ( -38.50)
>DroSim_CAF1 41129 120 - 1
GUAUUUCUGUCGGACAAGGAGAUCAAGGGCAUUGUCAUGAUUGGAGAAAUUGGCGGAUCCGCCGAGGAAGAUGCUGCCGAUUUUCUCAAGGAGAAGAACACUGGCUGCGAGGCCAAGCCA
(.((((((.........)))))))...(((.((.((....(((..((((((((((((((..(....)..))).)))))))))))..))).)).))......(((((....))))).))). ( -36.80)
>DroEre_CAF1 36529 120 - 1
GUAUUUCUUUCCGACAAGGAGAUCAAGGGCAUUGUCAUGAUCGGAGAGAUUGGCGGAUCCGCCGAGGAAGAGGCCGCCGAUUUUCUCAAGGAGAAAAACACAGGCUGCGAGGCCAAGCCA
((.(((((((((.....)))(((((..(((...))).))))).(((((((((((((.(((.....))).....))))))).))))))...)))))).))...((((....))))...... ( -40.90)
>DroYak_CAF1 39699 120 - 1
GUAUUUCUGUCCGACAAGGAGAUCAAGGGCAUUGUCAUGAUUGGAGAGAUUGGUGGAUCCGCCGAGGAAGAAGCCGCCGAUUUCCUCAAGGAGAAGAACACAGGCUGCGAGGCCAAGCCA
((.((..(.((((((((..............)))))....(((..(((((((((((.(((.....))).....)))))))))))..)))))).)..)).)).((((....))))...... ( -38.84)
>consensus
GUAUUUCUGUCCGACAAGGAGAUCAAGGGCAUUGUCAUGAUUGGAGAGAUUGGCGGAUCCGCCGAGGAAGAGGCUGCCGAUUUUCUCAAGGAGAAGAACACUGGCUGCGAGGCCAAGCCA
(.((((((.........)))))))...(((.((.((....(((..(((((((((((.(((.....))).....)))))))))))..))).)).)).......((((....))))..))). (-36.00 = -35.28 +  -0.72)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:05:54 2006