Locus 5524

Sequence ID X_DroMel_CAF1
Location 14,297,310 – 14,297,418
Length 108
Max. P 0.930991
window8964 window8965

overview

Window 4

Location 14,297,310 – 14,297,418
Length 108
Sequences 5
Columns 116
Reading direction forward
Mean pairwise identity 85.16
Mean single sequence MFE -29.44
Consensus MFE -18.44
Energy contribution -19.44
Covariance contribution 1.00
Combinations/Pair 1.08
Mean z-score -2.89
Structure conservation index 0.63
SVM decision value 1.04
SVM RNA-class probability 0.904691
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14297310 108 + 22224390
UUUGCAUAAUGCACGACACUUUUGAAUCAUGAACGUGGACGUGGACAUGAAAGAAGCCUUAACUCCA-UGACCACGU---CGUCCA----AUCCAAUGCAGCCCGACCAAUACUCC
.((((((.......(((..........(((....)))(((((((.((((................))-)).))))))---))))..----.....))))))............... ( -23.73)
>DroSec_CAF1 10222 111 + 1
UUUGCAUAAUGCACGACACUUUUGAAUCAUGGACGUGGACGUGGACAUGAAAGAAGCCUUAACUCCA-UGACCGCGUCCACGUCCA----AUCCAAUGCAGCCCGACCAAUCCUCC
.((((((......(((.....))).....(((((((((((((((.((((................))-)).)))))))))))))))----.....))))))............... ( -38.09)
>DroSim_CAF1 11220 111 + 1
UUUGCAUAAUGCACGACACUUUUGAAUCAUGGACGUGGACGUGGACAUGAAAGAAGCCUUAACUCCA-UGACCGCGUCCACGUCCA----AUCCAAUGCAGCCCGACCAAUCCUCC
.((((((......(((.....))).....(((((((((((((((.((((................))-)).)))))))))))))))----.....))))))............... ( -38.09)
>DroEre_CAF1 9447 99 + 1
UUUGCAUAAUGCACGACACUUUUGAAUCAUGGAC---GACGUGGACAUGAAAGAAGCCUUAACUCCA-UGACCACGA---CGUCCG----AACCAAUCC------UCCAGAAAUCC
..(((.....)))......(((((......((((---(.(((((.((((................))-)).))))).---)))))(----(........------))))))).... ( -22.59)
>DroYak_CAF1 12049 98 + 1
UUUGCAUAAUGCACGACACUUUUGAAUCAUGGAC---GACGUGGACAUGAAAGAAGCCUUAACUCCACUGACCACGU---CGUCCAACCCAACCAAUCC------UC------UCC
..(((.....)))................(((((---(((((((.((((................)).)).))))))---)))))).............------..------... ( -24.69)
>consensus
UUUGCAUAAUGCACGACACUUUUGAAUCAUGGACGUGGACGUGGACAUGAAAGAAGCCUUAACUCCA_UGACCACGU___CGUCCA____AUCCAAUGCAGCCCGACCAAUACUCC
..(((.....)))................((((((((.((((((.((.(((((....)))...))...)).)))))).)))))))).............................. (-18.44 = -19.44 +   1.00)

alignment

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secondary structure

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dotplot

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Window 5

Location 14,297,310 – 14,297,418
Length 108
Sequences 5
Columns 116
Reading direction reverse
Mean pairwise identity 85.16
Mean single sequence MFE -37.62
Consensus MFE -26.40
Energy contribution -28.44
Covariance contribution 2.04
Combinations/Pair 1.03
Mean z-score -2.52
Structure conservation index 0.70
SVM decision value 1.21
SVM RNA-class probability 0.930991
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14297310 108 - 22224390
GGAGUAUUGGUCGGGCUGCAUUGGAU----UGGACG---ACGUGGUCA-UGGAGUUAAGGCUUCUUUCAUGUCCACGUCCACGUUCAUGAUUCAAAAGUGUCGUGCAUUAUGCAAA
...((((.(((.(.((.(((((.((.----((((((---((((((.((-(((((..........))))))).)))))))...)))))....))...))))).)).))))))))... ( -32.50)
>DroSec_CAF1 10222 111 - 1
GGAGGAUUGGUCGGGCUGCAUUGGAU----UGGACGUGGACGCGGUCA-UGGAGUUAAGGCUUCUUUCAUGUCCACGUCCACGUCCAUGAUUCAAAAGUGUCGUGCAUUAUGCAAA
............(.((.(((((.((.----((((((((((((.((.((-(((((..........))))))).)).))))))))))))....))...))))).)).).......... ( -42.80)
>DroSim_CAF1 11220 111 - 1
GGAGGAUUGGUCGGGCUGCAUUGGAU----UGGACGUGGACGCGGUCA-UGGAGUUAAGGCUUCUUUCAUGUCCACGUCCACGUCCAUGAUUCAAAAGUGUCGUGCAUUAUGCAAA
............(.((.(((((.((.----((((((((((((.((.((-(((((..........))))))).)).))))))))))))....))...))))).)).).......... ( -42.80)
>DroEre_CAF1 9447 99 - 1
GGAUUUCUGGA------GGAUUGGUU----CGGACG---UCGUGGUCA-UGGAGUUAAGGCUUCUUUCAUGUCCACGUC---GUCCAUGAUUCAAAAGUGUCGUGCAUUAUGCAAA
.(((..((...------((((((...----.(((((---.(((((.((-(((((..........))))))).))))).)---)))).))))))...)).))).(((.....))).. ( -32.40)
>DroYak_CAF1 12049 98 - 1
GGA------GA------GGAUUGGUUGGGUUGGACG---ACGUGGUCAGUGGAGUUAAGGCUUCUUUCAUGUCCACGUC---GUCCAUGAUUCAAAAGUGUCGUGCAUUAUGCAAA
...------..------.(((...((((((((((((---((((((.((..(((((....))))).....)).)))))))---)))))..))))))....))).(((.....))).. ( -37.60)
>consensus
GGAGGAUUGGUCGGGCUGCAUUGGAU____UGGACG___ACGUGGUCA_UGGAGUUAAGGCUUCUUUCAUGUCCACGUCCACGUCCAUGAUUCAAAAGUGUCGUGCAUUAUGCAAA
....................((((((....((((((((.((((((.((..(((((....))))).....)).)))))).))))))))..))))))........(((.....))).. (-26.40 = -28.44 +   2.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:50:04 2006