Locus 569

Sequence ID 3R_DroMel_CAF1
Location 2,129,825 – 2,129,960
Length 135
Max. P 0.918600
window905 window906

overview

Window 5

Location 2,129,825 – 2,129,925
Length 100
Sequences 6
Columns 100
Reading direction reverse
Mean pairwise identity 78.93
Mean single sequence MFE -34.52
Consensus MFE -22.72
Energy contribution -25.25
Covariance contribution 2.53
Combinations/Pair 1.25
Mean z-score -2.05
Structure conservation index 0.66
SVM decision value 1.12
SVM RNA-class probability 0.918600
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2129825 100 - 27905053
GGCAGCUUCGAUUGGCUGCUCGGUGUUCACAGCAUCAUCUUCAGUUAUGAGGGGUUUUCCAUCAUCCUCGACAGGAAGUGCCCAGGCCAAGGAUACCAAA
(((((((......))))))).(((((((...((......((((....))))(((((((((.((......))..))))).))))..))...)))))))... ( -32.70)
>DroSec_CAF1 273074 100 - 1
GGCAGCUUCGAUUGGCUGCUCGGUGUUCACAGCAUCAAUUUCUGUGCUGAGGGGUUUCCCAUCAUCCUCGACAGGAAGUGUCCAGGCCAAGGAUACCAAA
(((((((......))))))).(((((((.((((((........)))))).(((....))).....(((.((((.....)))).)))....)))))))... ( -37.10)
>DroSim_CAF1 292080 100 - 1
GGCAGCUUCAAUUGGCUGCUCGGUGUUCACAGCAUCAAUUUCUGUGCUGAGGGGUUUCCCAUCAUCCUCGACAGGAAGUGUCCAGGCCAAGGAUACCAAA
(((((((......))))))).(((((((.((((((........)))))).(((....))).....(((.((((.....)))).)))....)))))))... ( -37.10)
>DroEre_CAF1 276555 100 - 1
GGCAGCUUCGAUUGGCUGCUGGGUGUUCACGGCAUUAUUUUGUGUUGUGAGGGUCUUCCUAUCAUCCUCGACAGGAAGUGCCCAGGCCAAGGACACCAGC
(((((((......))))))).((((((((((((((......)))))))..((((((((((.((......)).)))))).)))).......)))))))... ( -44.70)
>DroYak_CAF1 277747 100 - 1
GGAUGCUUCAAUGGGCUGCUCGGUGUUCACGGCAGAAUUUUCUGUUGGUAGGGGAUUCCUAUCAUCCUCGACAGGAAGUGCCCAGGCCAAGGAUACCAAC
.((.(((......)))...))(((((((..((((((....))))))(((..(((.(((((.((......)).)))))...)))..)))..)))))))... ( -35.30)
>DroAna_CAF1 245927 100 - 1
AACACCUUCAAUAAAUUCCUCAGUGUUUGUGGUUUCAUCCUGAAAAGUCACAGUCGUCUCCUUAUUUUCGACAGGAAGUGUCCAGGCUAAGGACAUCAAA
...............(((((.......(((((((((.....))))..)))))((((............)))))))))((((((.......)))))).... ( -20.20)
>consensus
GGCAGCUUCAAUUGGCUGCUCGGUGUUCACAGCAUCAUUUUCUGUUGUGAGGGGUUUCCCAUCAUCCUCGACAGGAAGUGCCCAGGCCAAGGAUACCAAA
(((((((......))))))).(((((((...((..((((((((((..((((((...........)))))))))))))))).....))...)))))))... (-22.72 = -25.25 +   2.53)

alignment

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secondary structure

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dotplot

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Window 6

Location 2,129,865 – 2,129,960
Length 95
Sequences 6
Columns 95
Reading direction reverse
Mean pairwise identity 72.84
Mean single sequence MFE -28.78
Consensus MFE -14.48
Energy contribution -14.10
Covariance contribution -0.38
Combinations/Pair 1.62
Mean z-score -1.59
Structure conservation index 0.50
SVM decision value 0.03
SVM RNA-class probability 0.548148
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2129865 95 - 27905053
AGCUGUCCAACAUUUUCCACUUCCUCAACCACAGGGGCAGCUUCGAUUGGCUGCUCGGUGUUCACAGCAUCAUCUUCAGUUAUGAGGGGUUUUCC
.(((((..((((((.........((.......))((((((((......)))))))))))))).)))))....((((((....))))))....... ( -26.60)
>DroSec_CAF1 273114 95 - 1
AGCUGUCCAACAUUUUCUGCUUCCUCCACCACAGGGGCAGCUUCGAUUGGCUGCUCGGUGUUCACAGCAUCAAUUUCUGUGCUGAGGGGUUUCCC
(((...............))).((((((.(((((((((((((......))))))))(((((.....))))).....))))).)).))))...... ( -31.86)
>DroSim_CAF1 292120 95 - 1
AGCUGUCCAACAUUUUCCACUUCCUCCACCACAGGGGCAGCUUCAAUUGGCUGCUCGGUGUUCACAGCAUCAAUUUCUGUGCUGAGGGGUUUCCC
......................((((((.(((((((((((((......))))))))(((((.....))))).....))))).)).))))...... ( -31.70)
>DroEre_CAF1 276595 95 - 1
AGCUGUCCAACAUUUUCCGCUUCCUCCACCACCGGGGCAGCUUCGAUUGGCUGCUGGGUGUUCACGGCAUUAUUUUGUGUUGUGAGGGUCUUCCU
....(.((.....................((((.((.(((((......))))))).))))((((((((((......)))))))))))).)..... ( -29.70)
>DroYak_CAF1 277787 95 - 1
AGCUGAGCAGCACUUUCUGCAUUUUCCACCACAGGGGAUGCUUCAAUGGGCUGCUCGGUGUUCACGGCAGAAUUUUCUGUUGGUAGGGGAUUCCU
.((((((((((.((....(((((..(.......)..)))))......)))))))))))).....(((((((....)))))))...(((....))) ( -35.60)
>DroAna_CAF1 245967 95 - 1
AGCUGACCGUGGUUCGAGGACUCUUCUAUUACUGGAACACCUUCAAUAAAUUCCUCAGUGUUUGUGGUUUCAUCCUGAAAAGUCACAGUCGUCUC
((.((((.(((((((.((((.....((((((((((...................))))))...)))).....)))))))...)))).)))).)). ( -17.21)
>consensus
AGCUGUCCAACAUUUUCCGCUUCCUCCACCACAGGGGCAGCUUCAAUUGGCUGCUCGGUGUUCACAGCAUCAUUUUCUGUUGUGAGGGGUUUCCC
.((((...((((((....................((((((((......))))))))))))))..)))).................(((....))) (-14.48 = -14.10 +  -0.38)

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 09:46:19 2006