Locus 7985

Sequence ID 3L_DroMel_CAF1
Location 21,109,879 – 21,110,039
Length 160
Max. P 0.978399
window13034 window13035

overview

Window 4

Location 21,109,879 – 21,109,999
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 94.67
Mean single sequence MFE -30.00
Consensus MFE -25.64
Energy contribution -25.88
Covariance contribution 0.24
Combinations/Pair 1.03
Mean z-score -1.93
Structure conservation index 0.85
SVM decision value 1.81
SVM RNA-class probability 0.978399
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21109879 120 + 23771897
AGGGAGAAAAAACUAGCACUGGCCCCAAGACGUUGGAAUUUUGUGAAUUGUUGUUGCUGCAGCCCAGCAAUAACGGUACAGAGGACAACAGUAUCAGCAACAAAUACAACAAAAAGGAAU
.(((((......)).((....))))).....((((...((((((..(((((((((((((.....)))))))))))))))))))..)))).((((.........))))............. ( -28.10)
>DroSec_CAF1 160462 120 + 1
AGGAAGAAAAGACUAGCGCUGGUCCCAAGACGUUGGAAUUUUGUGAAUUGUUGUUGCUGCAGCCCAGCAAUAACGGUACAUAGGACAACAGUAGCAGUAACAAAUACAACAAAUAGGAAU
............(((..(((((((....)))((((...(((((((.(((((((((((((.....))))))))))))).)))))))))))..)))).(((.....)))......))).... ( -31.20)
>DroSim_CAF1 68100 120 + 1
AGGAAGAAAAGACUAGCGCUGGCCCCAAGACGUUGGAAUUUUGUGAAUUGUUGUUGCUGCAGCCCAGCAAUAACGGUACAGAGGACAACAGUAGCAGCAACAAAUACAACAAAUAGGAAU
............(((((((((....).)).))))))...(((((.(.(((((((((((((.(((..........))).....(.....).))))))))))))).)...)))))....... ( -29.40)
>DroEre_CAF1 83049 119 + 1
AGGGAGA-AAAACUAGCGCUGGCCCCAAGACGUUGGAAUUUUGUGAAUUGUUGUUGCUGCAGCCCAGCAAUAACUGUACAGAGGACAACAGUAGCAGCAACAUAUACAACAAAUAGGAAU
.......-....(((((((((....).)).))))))....(((((...((((((((((((.(..(((......)))..)...(.....).))))))))))))..)))))........... ( -30.20)
>DroYak_CAF1 54927 120 + 1
AGGAAAAAAAAACUAGCGCUGGCCCCAAGACGUUGGAAUUUUGUGAAUUGUUGUUGCUGCAACCCAGCAAUAACGGUACAGAGGACAACAGUAGCAGCAACAAAUACCACAAAUAGAAAU
............(((((((((....).)).))))))...((((((..(((((((((((((.(((..........))).....(.....).)))))))))))))....))))))....... ( -31.10)
>consensus
AGGAAGAAAAAACUAGCGCUGGCCCCAAGACGUUGGAAUUUUGUGAAUUGUUGUUGCUGCAGCCCAGCAAUAACGGUACAGAGGACAACAGUAGCAGCAACAAAUACAACAAAUAGGAAU
...............((((((...((((....))))..((((.((.(((((((((((((.....))))))))))))).)).))))...)))).))......................... (-25.64 = -25.88 +   0.24)

alignment

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secondary structure

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dotplot

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Window 5

Location 21,109,919 – 21,110,039
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 94.50
Mean single sequence MFE -27.73
Consensus MFE -23.30
Energy contribution -23.46
Covariance contribution 0.16
Combinations/Pair 1.11
Mean z-score -1.56
Structure conservation index 0.84
SVM decision value 0.70
SVM RNA-class probability 0.828075
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21109919 120 + 23771897
UUGUGAAUUGUUGUUGCUGCAGCCCAGCAAUAACGGUACAGAGGACAACAGUAUCAGCAACAAAUACAACAAAAAGGAAUGACAAAGUGAAACCGACUGCGCUGCCCCACAAACUACGAC
(((((....((((((((((.....))))))))))((..(((.((...((.((((.........))))........(......)...))....))..)))..))....)))))........ ( -24.50)
>DroSec_CAF1 160502 120 + 1
UUGUGAAUUGUUGUUGCUGCAGCCCAGCAAUAACGGUACAUAGGACAACAGUAGCAGUAACAAAUACAACAAAUAGGAAUGACAAAGUGAAACUGACUGCGCUGCCCCACAAACUACGAC
.((((.(((((((((((((.....))))))))))))).))))((....((((.(((((......(((...................)))......)))))))))..))............ ( -29.21)
>DroSim_CAF1 68140 120 + 1
UUGUGAAUUGUUGUUGCUGCAGCCCAGCAAUAACGGUACAGAGGACAACAGUAGCAGCAACAAAUACAACAAAUAGGAAUGACAAAGUGAAACUGACUGCGCUGCCCCACAAACUACGAC
(((((.(((((((((((((.....)))))))))))))................(((((.................(......)..(((.......)))..)))))..)))))........ ( -27.30)
>DroEre_CAF1 83088 120 + 1
UUGUGAAUUGUUGUUGCUGCAGCCCAGCAAUAACUGUACAGAGGACAACAGUAGCAGCAACAUAUACAACAAAUAGGAAUGACAAAGUGAAACUGACUGCGUUGCCCCACAAACAAAGGC
(((((....((((((((((.....))))))))))........((.((((.(((((((...(((.......................)))...))).)))))))))).)))))........ ( -28.50)
>DroYak_CAF1 54967 120 + 1
UUGUGAAUUGUUGUUGCUGCAACCCAGCAAUAACGGUACAGAGGACAACAGUAGCAGCAACAAAUACCACAAAUAGAAAUGACAAAGUGAAACUGACUGCGCUGUCCCAAAAACAACGAC
(((((.(((((((((((((.....))))))))))))).).(.(((((...(((((((...((.......((........))......))...))).))))..))))))....)))).... ( -29.12)
>consensus
UUGUGAAUUGUUGUUGCUGCAGCCCAGCAAUAACGGUACAGAGGACAACAGUAGCAGCAACAAAUACAACAAAUAGGAAUGACAAAGUGAAACUGACUGCGCUGCCCCACAAACUACGAC
(((((.(((((((((((((.....)))))))))))))................(((((.................(......)..(((.......)))..)))))..)))))........ (-23.30 = -23.46 +   0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:02:56 2006