Locus 4150

Sequence ID 2L_DroMel_CAF1
Location 11,951,604 – 11,951,694
Length 90
Max. P 0.564048
window6543 window6544

overview

Window 3

Location 11,951,604 – 11,951,694
Length 90
Sequences 5
Columns 90
Reading direction forward
Mean pairwise identity 93.40
Mean single sequence MFE -20.36
Consensus MFE -17.44
Energy contribution -17.28
Covariance contribution -0.16
Combinations/Pair 1.05
Mean z-score -1.21
Structure conservation index 0.86
SVM decision value -0.03
SVM RNA-class probability 0.516040
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11951604 90 + 22407834
UCUUAUGGUUCCCACCAAGUUUUCUUGACCAUUUUCUGCAGCUGUGUUUGCGGGAAAAUAAAGGAGAAGAAAAUUGCCGAAACUAAAACC
.....((((....))))(((((((((..((.((((((((((......)))))))))).....))..)))))))))............... ( -19.40)
>DroSec_CAF1 170969 89 + 1
-CUUAUGGUUCCCACCAAGUUUUCUUGACCAUUUUCUGCAGCUGUGUCUGCGGGAAAAUAAAGGAGAAGAAAAUUGCCGAAACUAAAACC
-....((((....))))(((((((((..((.((((((((((......)))))))))).....))..)))))))))............... ( -21.20)
>DroSim_CAF1 137396 88 + 1
-CAUAUGGUUCCCACCAAGUUUUCUUGACCAUUUUCUGCAGCUGUGUCUGCGGGAAAAUAAAGGAGAAGA-AAUUGCCGAAACUAAAACC
-....((((....))))((((((........((((((((((......)))))))))).....((..((..-..)).))))))))...... ( -19.30)
>DroEre_CAF1 145793 86 + 1
-CUUGAUGUUCCCACCAAGUU-UCUUGACCAUUUUCUGCAGCUGUGUCUGCGGGAAA--AAAGGAGAAGAAAAUUGCCGAAUCUAAAACC
-......((((....(((.((-((((..((.((((((((((......))))))))))--...))..)))))).)))..))))........ ( -19.20)
>DroYak_CAF1 141315 89 + 1
-CUUGCUCUUCCCACCAAGUUUUCUUGACCAUUUUCUGCAGCUGUGACUGCGGGAAAAUAAAGGAGAAGAAAAUUGCCGAAACUAAAACC
-.....(((((((..((((....))))....((((((((((......)))))))))).....)).))))).................... ( -22.70)
>consensus
_CUUAUGGUUCCCACCAAGUUUUCUUGACCAUUUUCUGCAGCUGUGUCUGCGGGAAAAUAAAGGAGAAGAAAAUUGCCGAAACUAAAACC
........(((((..((((....))))....((((((((((......)))))))))).....)).)))...................... (-17.44 = -17.28 +  -0.16)

alignment

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secondary structure

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dotplot

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Window 4

Location 11,951,604 – 11,951,694
Length 90
Sequences 5
Columns 90
Reading direction reverse
Mean pairwise identity 93.40
Mean single sequence MFE -22.60
Consensus MFE -18.20
Energy contribution -19.60
Covariance contribution 1.40
Combinations/Pair 1.00
Mean z-score -1.42
Structure conservation index 0.81
SVM decision value 0.06
SVM RNA-class probability 0.564048
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11951604 90 - 22407834
GGUUUUAGUUUCGGCAAUUUUCUUCUCCUUUAUUUUCCCGCAAACACAGCUGCAGAAAAUGGUCAAGAAAACUUGGUGGGAACCAUAAGA
(((((.....(((.((((((((((..((...((((((..(((........))).))))))))..))))))).))).))))))))...... ( -20.10)
>DroSec_CAF1 170969 89 - 1
GGUUUUAGUUUCGGCAAUUUUCUUCUCCUUUAUUUUCCCGCAGACACAGCUGCAGAAAAUGGUCAAGAAAACUUGGUGGGAACCAUAAG-
(((((.....(((.((((((((((..((...((((((..((((......)))).))))))))..))))))).))).)))))))).....- ( -23.20)
>DroSim_CAF1 137396 88 - 1
GGUUUUAGUUUCGGCAAUU-UCUUCUCCUUUAUUUUCCCGCAGACACAGCUGCAGAAAAUGGUCAAGAAAACUUGGUGGGAACCAUAUG-
(((((.....(((.(((((-((((..((...((((((..((((......)))).))))))))..))))))..))).)))))))).....- ( -21.20)
>DroEre_CAF1 145793 86 - 1
GGUUUUAGAUUCGGCAAUUUUCUUCUCCUUU--UUUCCCGCAGACACAGCUGCAGAAAAUGGUCAAGA-AACUUGGUGGGAACAUCAAG-
..................((((((..((..(--((((..((((......)))).))))).))..))))-))(((((((....)))))))- ( -23.40)
>DroYak_CAF1 141315 89 - 1
GGUUUUAGUUUCGGCAAUUUUCUUCUCCUUUAUUUUCCCGCAGUCACAGCUGCAGAAAAUGGUCAAGAAAACUUGGUGGGAAGAGCAAG-
.((((...(..((.((((((((((..((...((((((..(((((....))))).))))))))..))))))).))).))..).))))...- ( -25.10)
>consensus
GGUUUUAGUUUCGGCAAUUUUCUUCUCCUUUAUUUUCCCGCAGACACAGCUGCAGAAAAUGGUCAAGAAAACUUGGUGGGAACCAUAAG_
.......(((((.((..(((((((..((...((((((..((((......)))).))))))))..)))))))....)).)))))....... (-18.20 = -19.60 +   1.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:10:47 2006