Locus 5395

Sequence ID X_DroMel_CAF1
Location 14,039,510 – 14,039,658
Length 148
Max. P 0.855630
window8754 window8755

overview

Window 4

Location 14,039,510 – 14,039,619
Length 109
Sequences 5
Columns 115
Reading direction reverse
Mean pairwise identity 87.95
Mean single sequence MFE -41.62
Consensus MFE -28.70
Energy contribution -27.78
Covariance contribution -0.92
Combinations/Pair 1.29
Mean z-score -2.62
Structure conservation index 0.69
SVM decision value 0.81
SVM RNA-class probability 0.855630
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14039510 109 - 22224390
UUUCCGGCUUCAAGGACCCAAGGACAUUGAGUUCGCCUGCCUAUCGUGGUGGUCUCAAUGUCUGGGUAAAUUGUACUGGAUUAUCUG------GCGAGUGAAAUGCGAGAUUGGC
..(((((...(((..(((((..(((((((((..((((..........))))..))))))))))))))...)))..)))))..((((.------(((.......))).)))).... ( -40.60)
>DroSec_CAF1 8618 109 - 1
UUUCCGGCAUCAAGGACCCAAGGACAUUGAGUUCGCCUGCCUGUCGGGCUGGUCUCAAUGUCUGGGUAAAUUGUACUGGACUAUCUG------GCGAGUGAAAUGCGAGAUUGGC
..(((((...(((..(((((..(((((((((...(((.(((.....))).)))))))))))))))))...)))..)))))(.((((.------(((.......))).)))).).. ( -42.80)
>DroSim_CAF1 7518 109 - 1
UUUCCGGCAUCAAGGACCCAAGGACAUUGAGUUCGCCUGCCUGUCGGGUUGCUCUCAAUGCCUGGGUAAAUUGUACUGGACUAUCUG------GCGAGUGAAAUGCGAGAUUGGC
..(((((...(((..(((((.((.(((((((..((((((.....)))).))..))))))))))))))...)))..)))))(.((((.------(((.......))).)))).).. ( -39.60)
>DroEre_CAF1 8426 106 - 1
UUUCCGGCAUCAAGGGCCCAAGAACGUUGGGUCUGCCCGCAUGUCGG--UGGGCUCAAUGUCUGGGUAAAUUG-ACUGGAUUAUCUG------GCGAGUGAAAUGCGAGAUUGGC
..(((((..((((..(((((.((.(((((((((..((........))--..))))))))))))))))...)))-))))))..((((.------(((.......))).)))).... ( -41.90)
>DroYak_CAF1 8257 113 - 1
UUUCCGGCUUCAAGGGCCCAGGAACGUUGAGUUUGCCAGCAUGUUGG--UGGGCUCAAUGUCUGGGUAAAUUGUACUGGAUUAUCUGUGAAAUGCGAGUGAAAUGCGAGAUGGGC
..(((((...(((..((((((..((((((((((..((((....))))--..))))))))))))))))...)))..)))))((((((((.....))..((.....)).)))))).. ( -43.20)
>consensus
UUUCCGGCAUCAAGGACCCAAGGACAUUGAGUUCGCCUGCCUGUCGGG_UGGUCUCAAUGUCUGGGUAAAUUGUACUGGAUUAUCUG______GCGAGUGAAAUGCGAGAUUGGC
..(((((...(((..((((.(((.(((((((..((((((.....)))).))..))))))))))))))...)))..))))).............(((.......)))......... (-28.70 = -27.78 +  -0.92)

alignment

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secondary structure

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dotplot

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Window 5

Location 14,039,544 – 14,039,658
Length 114
Sequences 5
Columns 115
Reading direction reverse
Mean pairwise identity 87.02
Mean single sequence MFE -34.32
Consensus MFE -23.16
Energy contribution -22.64
Covariance contribution -0.52
Combinations/Pair 1.31
Mean z-score -2.32
Structure conservation index 0.67
SVM decision value 0.49
SVM RNA-class probability 0.756069
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14039544 114 - 22224390
UCUUGAUUUUCUCUCUCUCUCAAU-CAAUUGCAGUUAGAUUUUCCGGCUUCAAGGACCCAAGGACAUUGAGUUCGCCUGCCUAUCGUGGUGGUCUCAAUGUCUGGGUAAAUUGUA
((((((.......(((..(((((.-...))).))..)))..........))))))(((((..(((((((((..((((..........))))..))))))))))))))........ ( -32.83)
>DroSec_CAF1 8652 114 - 1
UCUUGAUUUUCUCUAUCUCUCAAU-CAAUUGCAGUUAGAUUUUCCGGCAUCAAGGACCCAAGGACAUUGAGUUCGCCUGCCUGUCGGGCUGGUCUCAAUGUCUGGGUAAAUUGUA
(((((((.......(((((((((.-...))).))..))))........)))))))(((((..(((((((((...(((.(((.....))).)))))))))))))))))........ ( -35.06)
>DroSim_CAF1 7552 114 - 1
UCUUGAUUUUCUCUAUCUCUCAAU-CAAUUGCAGUUAGAUUUUCCGGCAUCAAGGACCCAAGGACAUUGAGUUCGCCUGCCUGUCGGGUUGCUCUCAAUGCCUGGGUAAAUUGUA
(((((((.......(((((((((.-...))).))..))))........)))))))(((((.((.(((((((..((((((.....)))).))..))))))))))))))........ ( -31.86)
>DroEre_CAF1 8460 109 - 1
UCUUGAUCCUCCC--UCUAUCAAU-CAAUUUCAGUUAGAUUUUCCGGCAUCAAGGGCCCAAGAACGUUGGGUCUGCCCGCAUGUCGG--UGGGCUCAAUGUCUGGGUAAAUUG-A
(((((((((....--((((.....-..........))))......)).)))))))(((((.((.(((((((((..((........))--..))))))))))))))))......-. ( -35.36)
>DroYak_CAF1 8297 111 - 1
UCUUGAUUUUCUC--CCUCUCAACCCAAUUUCAGUUAGAUUUUCCGGCUUCAAGGGCCCAGGAACGUUGAGUUUGCCAGCAUGUUGG--UGGGCUCAAUGUCUGGGUAAAUUGUA
((((((.......--..(((.(((.........))))))..........))))))((((((..((((((((((..((((....))))--..))))))))))))))))........ ( -36.51)
>consensus
UCUUGAUUUUCUCU_UCUCUCAAU_CAAUUGCAGUUAGAUUUUCCGGCAUCAAGGACCCAAGGACAUUGAGUUCGCCUGCCUGUCGGG_UGGUCUCAAUGUCUGGGUAAAUUGUA
.............................(((((((.......((........))((((.(((.(((((((..((((((.....)))).))..)))))))))))))).))))))) (-23.16 = -22.64 +  -0.52)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:46:56 2006