Locus 6485

Sequence ID X_DroMel_CAF1
Location 16,262,442 – 16,262,558
Length 116
Max. P 0.901233
window10593 window10594

overview

Window 3

Location 16,262,442 – 16,262,558
Length 116
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 93.99
Mean single sequence MFE -32.77
Consensus MFE -28.38
Energy contribution -29.00
Covariance contribution 0.62
Combinations/Pair 1.03
Mean z-score -1.93
Structure conservation index 0.87
SVM decision value 0.77
SVM RNA-class probability 0.847305
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16262442 116 + 22224390
AUAGGCUUGCAAUUCAAGCGAUACACACAGUUGUGCACGCACACAAACAAACAUGCGCACACACUGUUAUCAGCCAGCAGGACAUUUCAUAUGAUUUGCGCAGUGUUCUGUGUGU----U
....(((((.....)))))...((((((((.((((....))))..((((....((((((....(((((.......)))))..(((.....)))...)))))).))))))))))))----. ( -34.50)
>DroSec_CAF1 10694 114 + 1
AUAGGCUUGCAAUUCAAGCGAUACACACAGUCGUGGACGCACACAAACAAACAUGCGCACACACUGUUAUCAGCCAGCAGGACAUUUCAUAUGAUUUGCGCAGUGUUCUGUGUG------
...((((.((.......))((((...(((((.(((..((((............))))..)))))))))))))))).((((((((((.(.((.....)).).))))))))))...------ ( -33.20)
>DroEre_CAF1 10867 120 + 1
AUAGGCUUGCAAUUCAAGCGAUACACACAGUCGUACACGCACACAAACAAACAUGCGCACACACUGUUAUCAGCCAGCAGGACAUUUUAUAUGAUUUGCGCAGUGUUCUGUGUUCUGUGU
....(((((.....))))).....((((((.((....)).(((((((((....((((((....(((((.......)))))..(((.....)))...)))))).)))).))))).)))))) ( -31.70)
>DroYak_CAF1 10724 120 + 1
AUAGGCUUGCAAUUCAAGCGAUACACACAGUCGUACACGCACACAAACAAACAUGCGCACACACUGUUAUCAGCCAGCAGGACAUUUGAUAUGAUUUGCGCAGUGUUCUGUGUUCUGUGU
....(((((.....))))).....((((((.((....)).(((((((((....((((((....(((((.......)))))..(((.....)))...)))))).)))).))))).)))))) ( -31.70)
>consensus
AUAGGCUUGCAAUUCAAGCGAUACACACAGUCGUACACGCACACAAACAAACAUGCGCACACACUGUUAUCAGCCAGCAGGACAUUUCAUAUGAUUUGCGCAGUGUUCUGUGUGC____U
...((((.((.......))((((...(((((.(((..((((............))))..)))))))))))))))).((((((((((.(.((.....)).).))))))))))......... (-28.38 = -29.00 +   0.62)

alignment

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secondary structure

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dotplot

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Window 4

Location 16,262,442 – 16,262,558
Length 116
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 93.99
Mean single sequence MFE -35.65
Consensus MFE -34.20
Energy contribution -34.58
Covariance contribution 0.37
Combinations/Pair 1.06
Mean z-score -1.74
Structure conservation index 0.96
SVM decision value 1.02
SVM RNA-class probability 0.901233
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16262442 116 - 22224390
A----ACACACAGAACACUGCGCAAAUCAUAUGAAAUGUCCUGCUGGCUGAUAACAGUGUGUGCGCAUGUUUGUUUGUGUGCGUGCACAACUGUGUGUAUCGCUUGAAUUGCAAGCCUAU
.----((((((((........(((...(((.....)))...)))..((((....))))(((..((((..(......)..))))..)))..))))))))...(((((.....))))).... ( -39.60)
>DroSec_CAF1 10694 114 - 1
------CACACAGAACACUGCGCAAAUCAUAUGAAAUGUCCUGCUGGCUGAUAACAGUGUGUGCGCAUGUUUGUUUGUGUGCGUCCACGACUGUGUGUAUCGCUUGAAUUGCAAGCCUAU
------(((((((........(((...(((.....)))...)))..((((....))))(((..((((..(......)..))))..)))..)))))))....(((((.....))))).... ( -34.50)
>DroEre_CAF1 10867 120 - 1
ACACAGAACACAGAACACUGCGCAAAUCAUAUAAAAUGUCCUGCUGGCUGAUAACAGUGUGUGCGCAUGUUUGUUUGUGUGCGUGUACGACUGUGUGUAUCGCUUGAAUUGCAAGCCUAU
((((((.(((((((..((((((((...(((.....)))....((((........))))...)))))).))...))))))).((....)).)))))).....(((((.....))))).... ( -34.10)
>DroYak_CAF1 10724 120 - 1
ACACAGAACACAGAACACUGCGCAAAUCAUAUCAAAUGUCCUGCUGGCUGAUAACAGUGUGUGCGCAUGUUUGUUUGUGUGCGUGUACGACUGUGUGUAUCGCUUGAAUUGCAAGCCUAU
((((((.(((((((..((((((((...(((((((...(.((....)))))))....)))..)))))).))...))))))).((....)).)))))).....(((((.....))))).... ( -34.40)
>consensus
A____GAACACAGAACACUGCGCAAAUCAUAUGAAAUGUCCUGCUGGCUGAUAACAGUGUGUGCGCAUGUUUGUUUGUGUGCGUGCACGACUGUGUGUAUCGCUUGAAUUGCAAGCCUAU
.....((((((((........(((...(((.....)))...)))..((((....))))(((..((((..(......)..))))..)))..))))))))...(((((.....))))).... (-34.20 = -34.58 +   0.37)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:15:02 2006