Locus 9145

Sequence ID 3R_DroMel_CAF1
Location 24,397,227 – 24,397,318
Length 91
Max. P 0.873337
window14633 window14634

overview

Window 3

Location 24,397,227 – 24,397,318
Length 91
Sequences 6
Columns 104
Reading direction forward
Mean pairwise identity 82.44
Mean single sequence MFE -19.14
Consensus MFE -12.32
Energy contribution -12.16
Covariance contribution -0.17
Combinations/Pair 1.12
Mean z-score -2.74
Structure conservation index 0.64
SVM decision value 0.69
SVM RNA-class probability 0.823367
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24397227 91 + 27905053
CUGUGCAUUUGUCAAUGCAAACACACAAAUAUAUACACAAAAUUAAAAUCGCACA-------------GCAAAUGCCGAAGGAGAAGUCAUUGACACUGGCACA
..((((...(((((((((................................(((..-------------.....)))(....)....).))))))))...)))). ( -18.30)
>DroSec_CAF1 219317 91 + 1
CUGUGCAUUUGUCAAUGCAAACACACAAAUAUAUACACAAAAUUAAAAUCGCACA-------------GCAAAUGCCGAAGGAGAAGUCAUUGACACUGGCACA
..((((...(((((((((................................(((..-------------.....)))(....)....).))))))))...)))). ( -18.30)
>DroSim_CAF1 227995 91 + 1
CUGUGCAUUUGUCAAUGCAAACACACAAAUAUACACACAAAAUUAAAAUCGCACA-------------GUAAAUGCCGAAUGAGAAGUCAUUGACACUGGCACA
..((((...(((((((((................................(((..-------------.....)))(......)..).))))))))...)))). ( -16.60)
>DroEre_CAF1 233889 90 + 1
CUGUGCAUUUGUCAAUGCAAAUACACAAAUAUAUGCACAAAAUUAAAAUCGCACA-------------GCAAGUGCCGAA-GAGGUGUCAUUGACACUGGCACA
((((((((((.....((((.(((......))).))))........)))).)))))-------------)...(((((...-..((((((...))))))))))). ( -25.62)
>DroYak_CAF1 227779 85 + 1
CUGUGCAUUUGUCAAUGCAAAUACACAAAUAUAUACACAAAAUUAAAAUCGCAUA-------------GCAAAUGUAGAA------GUCAUUGACACUGGCACA
..((((...(((((((((...((((......(((.(..............).)))-------------.....))))...------).))))))))...)))). ( -16.84)
>DroAna_CAF1 222959 95 + 1
CUGUGCAUUUGUCAAUGCA--------AAUAUAUACACAAAAUUAAAACCGUAAACGCACCUACCACCAUAAACUGC-AAGUGGGAGUCAUUGACAUUGACACA
..(((((..(((((((((.--------......................((....))..(((((...((.....)).-..))))).).)))))))).)).))). ( -19.20)
>consensus
CUGUGCAUUUGUCAAUGCAAACACACAAAUAUAUACACAAAAUUAAAAUCGCACA_____________GCAAAUGCCGAAGGAGAAGUCAUUGACACUGGCACA
..((((...(((((((((................................((................))......(......)..).))))))))...)))). (-12.32 = -12.16 +  -0.17)

alignment

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secondary structure

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dotplot

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Window 4

Location 24,397,227 – 24,397,318
Length 91
Sequences 6
Columns 104
Reading direction reverse
Mean pairwise identity 82.44
Mean single sequence MFE -24.63
Consensus MFE -17.84
Energy contribution -17.65
Covariance contribution -0.19
Combinations/Pair 1.26
Mean z-score -2.65
Structure conservation index 0.72
SVM decision value 0.88
SVM RNA-class probability 0.873337
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24397227 91 - 27905053
UGUGCCAGUGUCAAUGACUUCUCCUUCGGCAUUUGC-------------UGUGCGAUUUUAAUUUUGUGUAUAUAUUUGUGUGUUUGCAUUGACAAAUGCACAG
(((((...((((((((.....((...((((....))-------------))...))..........(..((((....))))..)...))))))))...))))). ( -23.30)
>DroSec_CAF1 219317 91 - 1
UGUGCCAGUGUCAAUGACUUCUCCUUCGGCAUUUGC-------------UGUGCGAUUUUAAUUUUGUGUAUAUAUUUGUGUGUUUGCAUUGACAAAUGCACAG
(((((...((((((((.....((...((((....))-------------))...))..........(..((((....))))..)...))))))))...))))). ( -23.30)
>DroSim_CAF1 227995 91 - 1
UGUGCCAGUGUCAAUGACUUCUCAUUCGGCAUUUAC-------------UGUGCGAUUUUAAUUUUGUGUGUAUAUUUGUGUGUUUGCAUUGACAAAUGCACAG
(((((...((((((((.(....(((.(((.((.(((-------------.(..(((........)))..)))).))))).)))...)))))))))...))))). ( -23.90)
>DroEre_CAF1 233889 90 - 1
UGUGCCAGUGUCAAUGACACCUC-UUCGGCACUUGC-------------UGUGCGAUUUUAAUUUUGUGCAUAUAUUUGUGUAUUUGCAUUGACAAAUGCACAG
(((((...((((((((.((....-....((((....-------------.))))............(((((((....))))))).))))))))))...))))). ( -29.20)
>DroYak_CAF1 227779 85 - 1
UGUGCCAGUGUCAAUGAC------UUCUACAUUUGC-------------UAUGCGAUUUUAAUUUUGUGUAUAUAUUUGUGUAUUUGCAUUGACAAAUGCACAG
(((((...((((((((.(------...(((((....-------------(((((((........))))))).......)))))...)))))))))...))))). ( -24.30)
>DroAna_CAF1 222959 95 - 1
UGUGUCAAUGUCAAUGACUCCCACUU-GCAGUUUAUGGUGGUAGGUGCGUUUACGGUUUUAAUUUUGUGUAUAUAUU--------UGCAUUGACAAAUGCACAG
(((((...((((((((....(((((.-.........)))))((((((..(.(((((........))))).)..))))--------))))))))))...))))). ( -23.80)
>consensus
UGUGCCAGUGUCAAUGACUUCUCCUUCGGCAUUUGC_____________UGUGCGAUUUUAAUUUUGUGUAUAUAUUUGUGUGUUUGCAUUGACAAAUGCACAG
(((((...(((((((.....................................((((........))))(((.((((....)))).))))))))))...))))). (-17.84 = -17.65 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:27:36 2006