Locus 8467

Sequence ID 3L_DroMel_CAF1
Location 22,271,653 – 22,271,773
Length 120
Max. P 0.989158
window13849 window13850

overview

Window 9

Location 22,271,653 – 22,271,773
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 82.46
Mean single sequence MFE -35.93
Consensus MFE -26.59
Energy contribution -27.90
Covariance contribution 1.31
Combinations/Pair 1.04
Mean z-score -2.68
Structure conservation index 0.74
SVM decision value 2.15
SVM RNA-class probability 0.989158
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22271653 120 + 23771897
UCGCAAGUGGGGGGCAGCACAGACUGCCGCAUCAAAAUGCCGCAAUGGCCUGUUAUUAUAAUGAAAACGUAGCAGGCAUUGGUAGCAACAGUCUAGUGCGGCAAGAUGUAGGACUGAAAA
.....(((....(((((......)))))(((((....(((((((...(((((((((............)))))))))((((.......))))....))))))).)))))...)))..... ( -38.60)
>DroSec_CAF1 30052 110 + 1
----------GGGGCAGCACAGACUGCCGCAUCAAAAUGCCGCAAUGGCCUGUUAUUAUAAUGAAAACGUAGCAGGCAUUGGCAGCAACAGUCUAGUGCGGCGAGAUGUAGGACUGAAAA
----------(.(((((......))))).).......(((.((....(((((((((............)))))))))....)).))).((((((..((((......)))))))))).... ( -38.20)
>DroSim_CAF1 21646 110 + 1
----------GGGGCCGCACAGACUGCCGCAUCAAAAUGCCGCAAUAGCCUGUUAUUAUAAUGAAAACGUAGCAGGCAUUUGUAGCAACAGUCUAGUGCGGCGAGAUGUAGGACUGAAAA
----------...(((((((((((((..((((....)))).((((..(((((((((............)))))))))..)))).....)))))).))))))).................. ( -40.50)
>DroEre_CAF1 28923 91 + 1
----------UGGGGAGCACAGACUGCCGCAUCAAAAUGCCGCAAUGGCCUGUUAUUAUAAUGAAAACGUAGCAGGCAU-------------------CGGCGAGCUAUAUGGCUGAAAG
----------..((.((......)).))((((....))))(((....(((((((((............)))))))))..-------------------..)))((((....))))..... ( -26.40)
>consensus
__________GGGGCAGCACAGACUGCCGCAUCAAAAUGCCGCAAUGGCCUGUUAUUAUAAUGAAAACGUAGCAGGCAUUGGUAGCAACAGUCUAGUGCGGCGAGAUGUAGGACUGAAAA
............(((((......)))))(((((....(((((((...(((((((((............)))))))))...................))))))).)))))........... (-26.59 = -27.90 +   1.31)

alignment

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secondary structure

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dotplot

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Window 0

Location 22,271,653 – 22,271,773
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 82.46
Mean single sequence MFE -32.87
Consensus MFE -20.97
Energy contribution -24.72
Covariance contribution 3.75
Combinations/Pair 1.00
Mean z-score -2.68
Structure conservation index 0.64
SVM decision value 1.59
SVM RNA-class probability 0.966169
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22271653 120 - 23771897
UUUUCAGUCCUACAUCUUGCCGCACUAGACUGUUGCUACCAAUGCCUGCUACGUUUUCAUUAUAAUAACAGGCCAUUGCGGCAUUUUGAUGCGGCAGUCUGUGCUGCCCCCCACUUGCGA
..................((.((((.((((((((((....((((((.((...((((.............))))....)))))))).....)))))))))))))).))............. ( -33.32)
>DroSec_CAF1 30052 110 - 1
UUUUCAGUCCUACAUCUCGCCGCACUAGACUGUUGCUGCCAAUGCCUGCUACGUUUUCAUUAUAAUAACAGGCCAUUGCGGCAUUUUGAUGCGGCAGUCUGUGCUGCCCC----------
..................((.((((.((((((((((((((((((((((....................)))).))))..)))).......)))))))))))))).))...---------- ( -34.26)
>DroSim_CAF1 21646 110 - 1
UUUUCAGUCCUACAUCUCGCCGCACUAGACUGUUGCUACAAAUGCCUGCUACGUUUUCAUUAUAAUAACAGGCUAUUGCGGCAUUUUGAUGCGGCAGUCUGUGCGGCCCC----------
..................(((((((.((((((((((...(((((((......(((...........)))..((....)))))))))....)))))))))))))))))...---------- ( -41.60)
>DroEre_CAF1 28923 91 - 1
CUUUCAGCCAUAUAGCUCGCCG-------------------AUGCCUGCUACGUUUUCAUUAUAAUAACAGGCCAUUGCGGCAUUUUGAUGCGGCAGUCUGUGCUCCCCA----------
.....(((....((((..((..-------------------..))..))))................((((((...(((.((((....)))).)))))))))))).....---------- ( -22.30)
>consensus
UUUUCAGUCCUACAUCUCGCCGCACUAGACUGUUGCUACCAAUGCCUGCUACGUUUUCAUUAUAAUAACAGGCCAUUGCGGCAUUUUGAUGCGGCAGUCUGUGCUGCCCC__________
..................((.((((.((((((((((....((((((.((...((((.............))))....)))))))).....)))))))))))))).))............. (-20.97 = -24.72 +   3.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:16:12 2006