Locus 6079

Sequence ID 3R_DroMel_CAF1
Location 15,958,371 – 15,958,462
Length 91
Max. P 0.825500
window9915 window9916

overview

Window 5

Location 15,958,371 – 15,958,462
Length 91
Sequences 6
Columns 102
Reading direction forward
Mean pairwise identity 86.85
Mean single sequence MFE -30.96
Consensus MFE -20.99
Energy contribution -22.58
Covariance contribution 1.58
Combinations/Pair 1.08
Mean z-score -3.69
Structure conservation index 0.68
SVM decision value 0.31
SVM RNA-class probability 0.684757
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15958371 91 + 27905053
U-GUUGCCACUGGCCAUUUUUCAUUAGAACAAUG-----CAAUGGAGCUGCA-----GCAAUAUUACAUGCACAGCGAUGGCCAGAUGGCAAAGGGCAAAAA
.-.(((((((((((((((.((((((.........-----.))))))((((..-----(((........))).))))))))))))).)))))).......... ( -33.50)
>DroSec_CAF1 84678 91 + 1
U-GUUGCCACUGGCCAUUUUUCAUUAGAACAAUG-----CAAUGGAGCUGCA-----GCAAUAUUACAUGCACAGCGAUGGCCAGAUGGCAAAGGGCAAAAA
.-.(((((((((((((((.((((((.........-----.))))))((((..-----(((........))).))))))))))))).)))))).......... ( -33.50)
>DroSim_CAF1 60306 90 + 1
UCGUUGCC-CUGGCCAUUUUUCAUUAGAACAAUG-----CAAUGGAGCCCCU-----UCAAAAUUACAUGCACAGCGAUGGCCAGAUGGCAAAGGCCUUUA-
...(((((-(((((((((.(((....)))...((-----((.((........-----.........))))))....)))))))))..))))).........- ( -23.43)
>DroEre_CAF1 59682 89 + 1
U-GUUGCCACUGGCCAUUUUUCAUUAGAACAAUG-----CAAUGGAGCUGCG-----GCAAUAUUACAUGCACAGCGAUGGCCAGAUGGCAAAGGGCAAA--
.-.(((((((((((((((.((((((.........-----.))))))((((..-----(((........))).))))))))))))).))))))........-- ( -34.00)
>DroYak_CAF1 88547 90 + 1
U-GUUGCCACUGGCCAUUUUUCAUUAGAACAAUG-----CAAUGGAGCUGCA-----GCAAUAUUACAUGCACAGCGAUGGCCAGAUGGCAAAGGGCAAAA-
.-.(((((((((((((((.((((((.........-----.))))))((((..-----(((........))).))))))))))))).)))))).........- ( -33.50)
>DroAna_CAF1 54349 94 + 1
U-CUUGCCACUGGCCAUUUUUCAUUAGAACAAUGCAAUGCAAUGGAGCUGCAAUGGAGCCAUAUUACAUGCAUAGC------AAAAUGGUAAAGGGCAACA-
.-.(((((....((((((((((....)))...(((.(((((((((..((.....))..))))......))))).))------))))))))....)))))..- ( -27.80)
>consensus
U_GUUGCCACUGGCCAUUUUUCAUUAGAACAAUG_____CAAUGGAGCUGCA_____GCAAUAUUACAUGCACAGCGAUGGCCAGAUGGCAAAGGGCAAAA_
...(((((((((((((((.((((((...............))))))((((......................))))))))))))).)))))).......... (-20.99 = -22.58 +   1.58)

alignment

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secondary structure

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dotplot

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Window 6

Location 15,958,371 – 15,958,462
Length 91
Sequences 6
Columns 102
Reading direction reverse
Mean pairwise identity 86.85
Mean single sequence MFE -31.42
Consensus MFE -21.93
Energy contribution -23.65
Covariance contribution 1.72
Combinations/Pair 1.08
Mean z-score -3.91
Structure conservation index 0.70
SVM decision value 0.70
SVM RNA-class probability 0.825500
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15958371 91 - 27905053
UUUUUGCCCUUUGCCAUCUGGCCAUCGCUGUGCAUGUAAUAUUGC-----UGCAGCUCCAUUG-----CAUUGUUCUAAUGAAAAAUGGCCAGUGGCAAC-A
..........((((((.((((((((.((((((((........)))-----.)))))..(((((-----........)))))....)))))))))))))).-. ( -34.40)
>DroSec_CAF1 84678 91 - 1
UUUUUGCCCUUUGCCAUCUGGCCAUCGCUGUGCAUGUAAUAUUGC-----UGCAGCUCCAUUG-----CAUUGUUCUAAUGAAAAAUGGCCAGUGGCAAC-A
..........((((((.((((((((.((((((((........)))-----.)))))..(((((-----........)))))....)))))))))))))).-. ( -34.40)
>DroSim_CAF1 60306 90 - 1
-UAAAGGCCUUUGCCAUCUGGCCAUCGCUGUGCAUGUAAUUUUGA-----AGGGGCUCCAUUG-----CAUUGUUCUAAUGAAAAAUGGCCAG-GGCAACGA
-.......(.(((((..((((((((.((.(((...((..((....-----))..))..))).)-----)....(((....)))..))))))))-))))).). ( -23.60)
>DroEre_CAF1 59682 89 - 1
--UUUGCCCUUUGCCAUCUGGCCAUCGCUGUGCAUGUAAUAUUGC-----CGCAGCUCCAUUG-----CAUUGUUCUAAUGAAAAAUGGCCAGUGGCAAC-A
--........((((((.((((((((.((((((((........)).-----))))))..(((((-----........)))))....)))))))))))))).-. ( -34.40)
>DroYak_CAF1 88547 90 - 1
-UUUUGCCCUUUGCCAUCUGGCCAUCGCUGUGCAUGUAAUAUUGC-----UGCAGCUCCAUUG-----CAUUGUUCUAAUGAAAAAUGGCCAGUGGCAAC-A
-.........((((((.((((((((.((((((((........)))-----.)))))..(((((-----........)))))....)))))))))))))).-. ( -34.40)
>DroAna_CAF1 54349 94 - 1
-UGUUGCCCUUUACCAUUUU------GCUAUGCAUGUAAUAUGGCUCCAUUGCAGCUCCAUUGCAUUGCAUUGUUCUAAUGAAAAAUGGCCAGUGGCAAG-A
-..(((((((...(((((((------((.(((((((((((..((((.......))))..)))))).))))).))((....)))))))))..)).))))).-. ( -27.30)
>consensus
_UUUUGCCCUUUGCCAUCUGGCCAUCGCUGUGCAUGUAAUAUUGC_____UGCAGCUCCAUUG_____CAUUGUUCUAAUGAAAAAUGGCCAGUGGCAAC_A
..........((((((.((((((((.((((((((........)))......))))).................(((....)))..))))))))))))))... (-21.93 = -23.65 +   1.72)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:12:09 2006