Locus 7702

Sequence ID 3L_DroMel_CAF1
Location 20,602,158 – 20,602,300
Length 142
Max. P 0.998921
window12523 window12524

overview

Window 3

Location 20,602,158 – 20,602,260
Length 102
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 92.31
Mean single sequence MFE -33.58
Consensus MFE -29.12
Energy contribution -29.16
Covariance contribution 0.04
Combinations/Pair 1.03
Mean z-score -2.50
Structure conservation index 0.87
SVM decision value 3.28
SVM RNA-class probability 0.998921
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20602158 102 + 23771897
AUUGAUUUAUUUGCGCAAAUGCAGGUUCGACUCAUAAAUGUUGACAUGGCCCAAUGCCA------------GCGUCACGAUCAGUCAGCAG------CCAGUUGGCUAAUUGUGUAUGCU
........(((((((....)))))))(((((........)))))..((((.....))))------------((((((((((.(((((((..------...))))))).)))))).)))). ( -32.00)
>DroSec_CAF1 47041 102 + 1
AUUGAUUUAUUUGCGCAAAUGCAGGUUCGACUCAUAAAUGUUGACAUGGCCCAAUGCCA------------GCGUCACGAUCAGUCAGCAG------CCAGUUGGCUAAUUGUGUAUGCU
........(((((((....)))))))(((((........)))))..((((.....))))------------((((((((((.(((((((..------...))))))).)))))).)))). ( -32.00)
>DroAna_CAF1 69052 120 + 1
AUUGAUUUAUUUGCGCAAAUUCAGGUUCGACUCAUAAAUGUUGACAUGGCCCAAUGCCAGAUCGCCAGAUAGCAUCACGAUCAGUCAGCAGGCAUCGCCAGUUGGCUAAUUGUGUAUGCU
.......((((((.((..........(((((........)))))..((((.....))))....))))))))((((((((((.(((((((.(((...))).))))))).)))))).)))). ( -39.90)
>DroSim_CAF1 41835 102 + 1
AUUGAUUUAUUUGCGCAAAUGCAGGUUCGACUCAUAAAUGUUGACAUGGCCCAAUGCCA------------GCGUCACGAUCAGUCAGCAG------CCAGUUGGCUAAUUGUGUAUGCU
........(((((((....)))))))(((((........)))))..((((.....))))------------((((((((((.(((((((..------...))))))).)))))).)))). ( -32.00)
>DroEre_CAF1 39453 101 + 1
AUUGAUUUAUUUGCGCAAAUGCAGGUUCGACUCAUAAAUGUUGACAUGGC-CAAUGCCA------------GCGUCACGAUCAGUCAGCAG------CCAGUUGGCUAAUUGUGUAUGCU
........(((((((....)))))))(((((........)))))..((((-....))))------------((((((((((.(((((((..------...))))))).)))))).)))). ( -32.00)
>consensus
AUUGAUUUAUUUGCGCAAAUGCAGGUUCGACUCAUAAAUGUUGACAUGGCCCAAUGCCA____________GCGUCACGAUCAGUCAGCAG______CCAGUUGGCUAAUUGUGUAUGCU
........(((((((....)))))))(((((........)))))..((((.....))))............((((((((((.(((((((...........))))))).)))))).)))). (-29.12 = -29.16 +   0.04)

alignment

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secondary structure

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dotplot

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Window 4

Location 20,602,198 – 20,602,300
Length 102
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 91.94
Mean single sequence MFE -35.04
Consensus MFE -29.88
Energy contribution -29.92
Covariance contribution 0.04
Combinations/Pair 1.03
Mean z-score -2.35
Structure conservation index 0.85
SVM decision value 2.76
SVM RNA-class probability 0.996856
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20602198 102 + 23771897
UUGACAUGGCCCAAUGCCA------------GCGUCACGAUCAGUCAGCAG------CCAGUUGGCUAAUUGUGUAUGCUAAUGGAAUGCAAUUGUGUCAAAGUCCUGCAGUACCUGGAA
((((((((((.....)))(------------((((((((((.(((((((..------...))))))).)))))).)))))..............)))))))..(((..........))). ( -33.50)
>DroSec_CAF1 47081 102 + 1
UUGACAUGGCCCAAUGCCA------------GCGUCACGAUCAGUCAGCAG------CCAGUUGGCUAAUUGUGUAUGCUAAUGGAAUGCAAUUGUGUCAAAGUCCUGCAGUACCUGGAA
((((((((((.....)))(------------((((((((((.(((((((..------...))))))).)))))).)))))..............)))))))..(((..........))). ( -33.50)
>DroAna_CAF1 69092 120 + 1
UUGACAUGGCCCAAUGCCAGAUCGCCAGAUAGCAUCACGAUCAGUCAGCAGGCAUCGCCAGUUGGCUAAUUGUGUAUGCUAAUGGAAUGUAAUUGUGUCAAAGUCCUGCAGUACCUGGAA
((((((((((.....)))......(((..((((((((((((.(((((((.(((...))).))))))).)))))).)))))).))).........)))))))..(((..........))). ( -42.90)
>DroSim_CAF1 41875 102 + 1
UUGACAUGGCCCAAUGCCA------------GCGUCACGAUCAGUCAGCAG------CCAGUUGGCUAAUUGUGUAUGCUAAUGGAAUGCAAUUGUGUCAAAGUCCUGCAGUACCUGGAA
((((((((((.....)))(------------((((((((((.(((((((..------...))))))).)))))).)))))..............)))))))..(((..........))). ( -33.50)
>DroEre_CAF1 39493 101 + 1
UUGACAUGGC-CAAUGCCA------------GCGUCACGAUCAGUCAGCAG------CCAGUUGGCUAAUUGUGUAUGCUAAUGGAAUGCAAUUGUGUCAAAGUCCUGCAGUACCUGAAA
((((((((((-....)))(------------((((((((((.(((((((..------...))))))).)))))).)))))..............)))))))................... ( -31.80)
>consensus
UUGACAUGGCCCAAUGCCA____________GCGUCACGAUCAGUCAGCAG______CCAGUUGGCUAAUUGUGUAUGCUAAUGGAAUGCAAUUGUGUCAAAGUCCUGCAGUACCUGGAA
((((((((((.....))).............((((((((((.(((((((...........))))))).)))))).))))...............)))))))..(((..........))). (-29.88 = -29.92 +   0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:54:21 2006