Locus 1596

Sequence ID 3L_DroMel_CAF1
Location 4,672,131 – 4,672,223
Length 92
Max. P 0.999560
window2472 window2473

overview

Window 2

Location 4,672,131 – 4,672,223
Length 92
Sequences 5
Columns 92
Reading direction forward
Mean pairwise identity 99.35
Mean single sequence MFE -17.68
Consensus MFE -16.96
Energy contribution -16.72
Covariance contribution -0.24
Combinations/Pair 1.04
Mean z-score -2.98
Structure conservation index 0.96
SVM decision value 3.72
SVM RNA-class probability 0.999560
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4672131 92 + 23771897
AAAUGCAACAGCAACAAUAACAAUGGCACAAUGCAAUCAAACAAUCAGAGACAAGCUCGCUGAACUGAAAUGCCAAUUGUGAAAAUUGUAAA
...(((....)))......(((((..(((((((((.(((.....((((.((.....)).))))..)))..)))..))))))...)))))... ( -17.80)
>DroSec_CAF1 44118 92 + 1
AAAUGCAACAGCAACAAUAACAAUGGCACAAUGCAAUCAAACAAUCAGAGACAAGCUCGCUGAACUGAAAUGCCAAUUGUGAAAAUUGUAAA
...(((....)))......(((((..(((((((((.(((.....((((.((.....)).))))..)))..)))..))))))...)))))... ( -17.80)
>DroSim_CAF1 47128 92 + 1
AAAUGCAACAGCAACAAUAACAAUGGCACAAUGCAAUCAAACAAUCAGAGACAAGCUCGCUGAACUGAAAUGCCAAUUGUGAAAAUUGUAAA
...(((....)))......(((((..(((((((((.(((.....((((.((.....)).))))..)))..)))..))))))...)))))... ( -17.80)
>DroEre_CAF1 46789 92 + 1
AAAUGCAACAGCAACAAUAACAAUGGCACAAUGCAAUCAAACAAUCAGAGACAAGCUCGUUGAACUGAAAUGCCAAUUGUGAAAAUUGUAAA
...(((....)))......(((((..(((((((((.(((..((((..(((.....)))))))...)))..)))..))))))...)))))... ( -17.50)
>DroYak_CAF1 50639 92 + 1
AAAUGCAACAGCAACAAUAACAAUGGCACAAUGCAAUCAAACAAUCAGAGACAAGCUCGUUGAACUGAAAUGCCAAUUGUGAAAAUUGUAAA
...(((....)))......(((((..(((((((((.(((..((((..(((.....)))))))...)))..)))..))))))...)))))... ( -17.50)
>consensus
AAAUGCAACAGCAACAAUAACAAUGGCACAAUGCAAUCAAACAAUCAGAGACAAGCUCGCUGAACUGAAAUGCCAAUUGUGAAAAUUGUAAA
...(((....)))......(((((..(((((((((.(((.....((((.((.....)).))))..)))..)))..))))))...)))))... (-16.96 = -16.72 +  -0.24)

alignment

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secondary structure

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dotplot

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Window 3

Location 4,672,131 – 4,672,223
Length 92
Sequences 5
Columns 92
Reading direction reverse
Mean pairwise identity 99.35
Mean single sequence MFE -20.90
Consensus MFE -21.14
Energy contribution -20.90
Covariance contribution -0.24
Combinations/Pair 1.03
Mean z-score -2.49
Structure conservation index 1.01
SVM decision value 3.60
SVM RNA-class probability 0.999434
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4672131 92 - 23771897
UUUACAAUUUUCACAAUUGGCAUUUCAGUUCAGCGAGCUUGUCUCUGAUUGUUUGAUUGCAUUGUGCCAUUGUUAUUGUUGCUGUUGCAUUU
...(((((....(((((.(((((..(((((.(((((.(........).))))).)))))....)))))))))).)))))(((....)))... ( -20.90)
>DroSec_CAF1 44118 92 - 1
UUUACAAUUUUCACAAUUGGCAUUUCAGUUCAGCGAGCUUGUCUCUGAUUGUUUGAUUGCAUUGUGCCAUUGUUAUUGUUGCUGUUGCAUUU
...(((((....(((((.(((((..(((((.(((((.(........).))))).)))))....)))))))))).)))))(((....)))... ( -20.90)
>DroSim_CAF1 47128 92 - 1
UUUACAAUUUUCACAAUUGGCAUUUCAGUUCAGCGAGCUUGUCUCUGAUUGUUUGAUUGCAUUGUGCCAUUGUUAUUGUUGCUGUUGCAUUU
...(((((....(((((.(((((..(((((.(((((.(........).))))).)))))....)))))))))).)))))(((....)))... ( -20.90)
>DroEre_CAF1 46789 92 - 1
UUUACAAUUUUCACAAUUGGCAUUUCAGUUCAACGAGCUUGUCUCUGAUUGUUUGAUUGCAUUGUGCCAUUGUUAUUGUUGCUGUUGCAUUU
...(((((....(((((.(((((..(((((.(((((.(........).))))).)))))....)))))))))).)))))(((....)))... ( -20.90)
>DroYak_CAF1 50639 92 - 1
UUUACAAUUUUCACAAUUGGCAUUUCAGUUCAACGAGCUUGUCUCUGAUUGUUUGAUUGCAUUGUGCCAUUGUUAUUGUUGCUGUUGCAUUU
...(((((....(((((.(((((..(((((.(((((.(........).))))).)))))....)))))))))).)))))(((....)))... ( -20.90)
>consensus
UUUACAAUUUUCACAAUUGGCAUUUCAGUUCAGCGAGCUUGUCUCUGAUUGUUUGAUUGCAUUGUGCCAUUGUUAUUGUUGCUGUUGCAUUU
...(((((....(((((.(((((..(((((.(((((.(........).))))).)))))....)))))))))).)))))(((....)))... (-21.14 = -20.90 +  -0.24)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:11:32 2006