Locus 4960

Sequence ID 3L_DroMel_CAF1
Location 13,710,615 – 13,710,726
Length 111
Max. P 0.776542
window7829 window7830

overview

Window 9

Location 13,710,615 – 13,710,726
Length 111
Sequences 5
Columns 111
Reading direction forward
Mean pairwise identity 96.76
Mean single sequence MFE -32.57
Consensus MFE -29.78
Energy contribution -30.14
Covariance contribution 0.36
Combinations/Pair 1.03
Mean z-score -1.20
Structure conservation index 0.91
SVM decision value 0.12
SVM RNA-class probability 0.591065
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13710615 111 + 23771897
UGGCAUUCGAGUGGCUGUUCUGGGGAUUAGAAUGCGGAGGUGGCAAGCAAUUUGACAAAUGCGAUUGUUGUUUGCCAAUCAACCUUGGAUAAAGAUUUCGCAAUCGAAUAG
....((((((((((((..((..(((....(....).((..((((((((((((((.(....))))..))))))))))).))..)))..))...))...))))..)))))).. ( -30.40)
>DroSec_CAF1 117620 111 + 1
UGGCAUUCGAGUGGCUUUUCUGGGGAUUAGCAUGCGGAGGUGGCAAGCAAUUUGACAAAUGCGAUUGUUGUUUGCCAAUCAACCUUGGAUAAGGAUUUCCCAAUCGAAUAG
....((((((.((((((.((..(((....(....).((..((((((((((((((.(....))))..))))))))))).))..)))..)).)))......))).)))))).. ( -33.70)
>DroSim_CAF1 128530 111 + 1
UGGCAUUCGAGUGGCUGUUCUGGGGAUUAGCAUGCGGAGGUGGCAAGCAAUUUGACAAAUGCGAUUGUUGUUUGCCAAUCAACCUUGGAUAAGGAUUUCCCAAUCGAAUUG
....((((((.((((((.((....)).))))....(((((((((((((((((((.(....))))..))))))))))......((((....)))))))))))).)))))).. ( -33.00)
>DroEre_CAF1 124176 111 + 1
UGGCAUUCGAGUGGCUGUUCUGGGGAUUAGCAUGCGGAGGUGGCAAGCAAUUUGACAAAUGCGAUUGUUGUUUGCCAAUCAACCUUGGAUCAAGAUUUCCCCAUCGAAUAG
..............((((((((((((........(.((((((((((((((((((.(....))))..)))))))))).....))))).).........))))))..)))))) ( -33.93)
>DroYak_CAF1 127783 111 + 1
UGGCAUUCGAGUGGCUGUUCUGGGGAUUAGCAUGCGUAGGUGGCAAGCAAUUUGACAAAUGCGAUUGUUGUUUGCCAAUCAACCUUGGAUCAAGAUUUCCCAAUCGAAUAG
....((((((.(((((..((..(((....((....)).((((((((((((((((.(....))))..)))))))))).)))..)))..))...)).....))).)))))).. ( -31.80)
>consensus
UGGCAUUCGAGUGGCUGUUCUGGGGAUUAGCAUGCGGAGGUGGCAAGCAAUUUGACAAAUGCGAUUGUUGUUUGCCAAUCAACCUUGGAUAAAGAUUUCCCAAUCGAAUAG
....((((((.(((((..((..(((....(....).((..((((((((((((((.(....))))..))))))))))).))..)))..))...)).....))).)))))).. (-29.78 = -30.14 +   0.36)

alignment

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secondary structure

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dotplot

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Window 0

Location 13,710,615 – 13,710,726
Length 111
Sequences 5
Columns 111
Reading direction reverse
Mean pairwise identity 96.76
Mean single sequence MFE -25.76
Consensus MFE -21.18
Energy contribution -21.98
Covariance contribution 0.80
Combinations/Pair 1.00
Mean z-score -1.78
Structure conservation index 0.82
SVM decision value 0.54
SVM RNA-class probability 0.776542
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13710615 111 - 23771897
CUAUUCGAUUGCGAAAUCUUUAUCCAAGGUUGAUUGGCAAACAACAAUCGCAUUUGUCAAAUUGCUUGCCACCUCCGCAUUCUAAUCCCCAGAACAGCCACUCGAAUGCCA
.((((((((((.((........)))))(((((..((((((.((((((......)))).....)).))))))........((((.......)))))))))..)))))))... ( -22.50)
>DroSec_CAF1 117620 111 - 1
CUAUUCGAUUGGGAAAUCCUUAUCCAAGGUUGAUUGGCAAACAACAAUCGCAUUUGUCAAAUUGCUUGCCACCUCCGCAUGCUAAUCCCCAGAAAAGCCACUCGAAUGCCA
.(((((((.(((.....((((....))))..((((((((..........(((.((....)).))).(((.......)))))))))))..........))).)))))))... ( -25.70)
>DroSim_CAF1 128530 111 - 1
CAAUUCGAUUGGGAAAUCCUUAUCCAAGGUUGAUUGGCAAACAACAAUCGCAUUUGUCAAAUUGCUUGCCACCUCCGCAUGCUAAUCCCCAGAACAGCCACUCGAAUGCCA
..((((((.(((.....((((....))))..((((((((..........(((.((....)).))).(((.......)))))))))))..........))).)))))).... ( -25.10)
>DroEre_CAF1 124176 111 - 1
CUAUUCGAUGGGGAAAUCUUGAUCCAAGGUUGAUUGGCAAACAACAAUCGCAUUUGUCAAAUUGCUUGCCACCUCCGCAUGCUAAUCCCCAGAACAGCCACUCGAAUGCCA
.((((((((((((((((((((...)))))))..((((((..........(((.((....)).))).(((.......)))))))))))))))(......)..)))))))... ( -27.80)
>DroYak_CAF1 127783 111 - 1
CUAUUCGAUUGGGAAAUCUUGAUCCAAGGUUGAUUGGCAAACAACAAUCGCAUUUGUCAAAUUGCUUGCCACCUACGCAUGCUAAUCCCCAGAACAGCCACUCGAAUGCCA
.(((((((.(((..(((((((...)))))))((((((((..........(((.((....)).))).(((.......)))))))))))..........))).)))))))... ( -27.70)
>consensus
CUAUUCGAUUGGGAAAUCUUUAUCCAAGGUUGAUUGGCAAACAACAAUCGCAUUUGUCAAAUUGCUUGCCACCUCCGCAUGCUAAUCCCCAGAACAGCCACUCGAAUGCCA
.(((((((.(((((........)))..((..((((((((..........(((.((....)).))).(((.......))))))))))).))........)).)))))))... (-21.18 = -21.98 +   0.80)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:38:00 2006