Locus 5147

Sequence ID 3R_DroMel_CAF1
Location 13,536,363 – 13,536,474
Length 111
Max. P 0.520271
window8399 window8400

overview

Window 9

Location 13,536,363 – 13,536,474
Length 111
Sequences 3
Columns 111
Reading direction forward
Mean pairwise identity 80.97
Mean single sequence MFE -25.15
Consensus MFE -16.00
Energy contribution -16.12
Covariance contribution 0.12
Combinations/Pair 1.21
Mean z-score -1.73
Structure conservation index 0.64
SVM decision value -0.03
SVM RNA-class probability 0.520271
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13536363 111 + 27905053
ACAUUGCUUUUAAGCCCUACUUAAGGCAUUUGUUAUAAUUCCCUCUGCAAGCAAGUCAACACUACUCCCAACACUGUUGGUCUGGCCAAAGGUAAGCAAUGCUAAGGAAAG
.(((((((((((((.....)))))(((.(((((.............)))))((..((((((.............))))))..)))))......)))))))).......... ( -21.64)
>DroSec_CAF1 11248 97 + 1
ACAUUGCUUAUAAGCCCUACUUAAGGCAUUGGCUAUAAUUCCCUCUGCAAACAAGUCAAC------------ACUGUUGGCCUGGCCAAAGGUAAGCAAUGCUAAGGAA--
.((((((((((..(((........))).(((((((..........((....)).((((((------------...)))))).)))))))..))))))))))........-- ( -27.70)
>DroYak_CAF1 12916 109 + 1
ACAUUGUGUAUGAACCCUUCUUCAUGCAUUGGCUAUAAUUCCCUCUGCAAAUAAGUCAACACUGUUCUCAACAUUGUUGGCCCGACCAAAGGUAAGCAAUGCUAAGGAA--
.((..(((((((((......)))))))))))..........(((..(((.....(((((((.(((.....))).)))))))((.......)).......)))..)))..-- ( -26.10)
>consensus
ACAUUGCUUAUAAGCCCUACUUAAGGCAUUGGCUAUAAUUCCCUCUGCAAACAAGUCAACACU__UC_CAACACUGUUGGCCUGGCCAAAGGUAAGCAAUGCUAAGGAA__
.((.(((((.((((.....))))))))).))..........(((..(((..((.(((((((.............))))))).))(((...)))......)))..))).... (-16.00 = -16.12 +   0.12)

alignment

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secondary structure

Postscript

dotplot

Postscript

Window 0

Location 13,536,363 – 13,536,474
Length 111
Sequences 3
Columns 111
Reading direction reverse
Mean pairwise identity 80.97
Mean single sequence MFE -28.90
Consensus MFE -22.32
Energy contribution -23.17
Covariance contribution 0.84
Combinations/Pair 1.19
Mean z-score -1.36
Structure conservation index 0.77
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13536363 111 - 27905053
CUUUCCUUAGCAUUGCUUACCUUUGGCCAGACCAACAGUGUUGGGAGUAGUGUUGACUUGCUUGCAGAGGGAAUUAUAACAAAUGCCUUAAGUAGGGCUUAAAAGCAAUGU
.........(((((((((.((((((......(((((...)))))(((((((....)).))))).))))))..............(((((....)))))....))))))))) ( -32.10)
>DroSec_CAF1 11248 97 - 1
--UUCCUUAGCAUUGCUUACCUUUGGCCAGGCCAACAGU------------GUUGACUUGUUUGCAGAGGGAAUUAUAGCCAAUGCCUUAAGUAGGGCUUAUAAGCAAUGU
--.......((((((((((((((((..((((.((((...------------)))).))))....))))))..............(((((....)))))...)))))))))) ( -29.50)
>DroYak_CAF1 12916 109 - 1
--UUCCUUAGCAUUGCUUACCUUUGGUCGGGCCAACAAUGUUGAGAACAGUGUUGACUUAUUUGCAGAGGGAAUUAUAGCCAAUGCAUGAAGAAGGGUUCAUACACAAUGU
--...((((((((((.......((((.....))))))))))))))....((((((((((...((((...((........))..)))).....)))...))).))))..... ( -25.11)
>consensus
__UUCCUUAGCAUUGCUUACCUUUGGCCAGGCCAACAGUGUUG_GA__AGUGUUGACUUGUUUGCAGAGGGAAUUAUAGCCAAUGCCUUAAGUAGGGCUUAUAAGCAAUGU
.........((((((((((((((((((.((..(((((.(((.....))).))))).)).))...))))))..............((((......))))...)))))))))) (-22.32 = -23.17 +   0.84)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:47:32 2006