Locus 8631

Sequence ID 3L_DroMel_CAF1
Location 22,432,807 – 22,432,904
Length 97
Max. P 0.956631
window14142 window14143

overview

Window 2

Location 22,432,807 – 22,432,904
Length 97
Sequences 5
Columns 112
Reading direction forward
Mean pairwise identity 75.87
Mean single sequence MFE -38.59
Consensus MFE -20.52
Energy contribution -20.04
Covariance contribution -0.48
Combinations/Pair 1.29
Mean z-score -2.12
Structure conservation index 0.53
SVM decision value 1.28
SVM RNA-class probability 0.939411
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22432807 97 + 23771897
UCCU-----------AUGCCG--GAGGUGGUAACUCCUGGCUGGAAGAUGGAGCUUC--UGUAGGGAGCUGCAGAAGUUGGCUGCCAACUGUUUGAUGGUGCUGCUGCACAA
(((.-----------..((((--(..((....))..))))).)))..((.((((.((--(((((....)))))))((((((...)))))))))).)).((((....)))).. ( -38.80)
>DroSec_CAF1 4706 90 + 1
UCCU-----------AUGCUGGGGAGGUGGUAACUCCUGGCUGGGAGAUGGAGC--------AGGGAGCUGCAGAAGUUGGCUGCCAACUGUUGGAUGGUGCUGCAGCA---
((((-----------(.((..((.((.......))))..)))))))........--------.....(((((((.((((((...))))))...........))))))).--- ( -33.30)
>DroSim_CAF1 9679 90 + 1
UCCU-----------AUGCUGGGGAAGUGGUAACUCCUGGCUGGGAGAUGGAGC--------AGGGAGCUGCAGAAGUUGGCUGCCAACUGUUGGAUGGUGCUGCUGCA---
((((-----------(.((..((..(((....)))))..)))))))..((.(((--------((.(...(.(((.((((((...)))))).))).)...).))))).))--- ( -33.30)
>DroEre_CAF1 10697 99 + 1
-------------CCGUGCAGGGGAGGUGGCAGCUCCCCGCUGGAAGGAGGAGCGGGGGAGCGGGGAGCUGCAGAAGUUGGCUGCCAACUGUUGGAUGGUGCUGCUGCACAA
-------------..((((((.((.....(((((((((((((.................)))))))))))))...((((((...))))))...........)).)))))).. ( -47.73)
>DroYak_CAF1 46433 105 + 1
UCCAAUGGCGUGGCCGUGCAGGGGAAGUGUUGGCUCUUUGCUUGAAGAUGGAACAGGG-------GAGCUGCAGCAGUUGGCUGCCAACUGUUGGAUGGUGCUGCUGCACAA
......(((...)))((((((.((.(.((((((((((((.((.......))....)))-------))))).((((((((((...)))))))))))))).).)).)))))).. ( -39.80)
>consensus
UCCU___________AUGCAGGGGAGGUGGUAACUCCUGGCUGGAAGAUGGAGC________AGGGAGCUGCAGAAGUUGGCUGCCAACUGUUGGAUGGUGCUGCUGCACAA
.................((((((..(((....)))))))))..........................((.((((.((((((...))))))...........)))).)).... (-20.52 = -20.04 +  -0.48)

alignment

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secondary structure

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dotplot

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Window 3

Location 22,432,807 – 22,432,904
Length 97
Sequences 5
Columns 112
Reading direction reverse
Mean pairwise identity 75.87
Mean single sequence MFE -27.61
Consensus MFE -16.36
Energy contribution -16.48
Covariance contribution 0.12
Combinations/Pair 1.16
Mean z-score -2.10
Structure conservation index 0.59
SVM decision value 1.47
SVM RNA-class probability 0.956631
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22432807 97 - 23771897
UUGUGCAGCAGCACCAUCAAACAGUUGGCAGCCAACUUCUGCAGCUCCCUACA--GAAGCUCCAUCUUCCAGCCAGGAGUUACCACCUC--CGGCAU-----------AGGA
..((((....))))........(((((.(((.......)))))))).((((..--((((......))))..(((.((((.......)))--)))).)-----------))). ( -25.40)
>DroSec_CAF1 4706 90 - 1
---UGCUGCAGCACCAUCCAACAGUUGGCAGCCAACUUCUGCAGCUCCCU--------GCUCCAUCUCCCAGCCAGGAGUUACCACCUCCCCAGCAU-----------AGGA
---.(((((((...........((((((...)))))).))))))).....--------........(((..((..((((.......))))...))..-----------.))) ( -21.90)
>DroSim_CAF1 9679 90 - 1
---UGCAGCAGCACCAUCCAACAGUUGGCAGCCAACUUCUGCAGCUCCCU--------GCUCCAUCUCCCAGCCAGGAGUUACCACUUCCCCAGCAU-----------AGGA
---(((.((((...........((((((...)))))).))))((((((..--------(((.........)))..))))))............))).-----------.... ( -20.30)
>DroEre_CAF1 10697 99 - 1
UUGUGCAGCAGCACCAUCCAACAGUUGGCAGCCAACUUCUGCAGCUCCCCGCUCCCCCGCUCCUCCUUCCAGCGGGGAGCUGCCACCUCCCCUGCACGG-------------
.(((((((..............((((((...))))))...(((((((((((((.................)))))))))))))........))))))).------------- ( -41.83)
>DroYak_CAF1 46433 105 - 1
UUGUGCAGCAGCACCAUCCAACAGUUGGCAGCCAACUGCUGCAGCUC-------CCCUGUUCCAUCUUCAAGCAAAGAGCCAACACUUCCCCUGCACGGCCACGCCAUUGGA
..((((....))))..((((((((((((...))))))).(((((...-------...((((...((((......))))...))))......))))).(((...))).))))) ( -28.60)
>consensus
UUGUGCAGCAGCACCAUCCAACAGUUGGCAGCCAACUUCUGCAGCUCCCU________GCUCCAUCUUCCAGCCAGGAGUUACCACCUCCCCAGCAU___________AGGA
..((((.((((...........((((((...)))))).))))................(((((............))))).............))))............... (-16.36 = -16.48 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:20:52 2006