Locus 2874

Sequence ID 3L_DroMel_CAF1
Location 8,214,917 – 8,215,038
Length 121
Max. P 0.881139
window4488 window4489

overview

Window 8

Location 8,214,917 – 8,215,008
Length 91
Sequences 5
Columns 107
Reading direction reverse
Mean pairwise identity 73.18
Mean single sequence MFE -25.23
Consensus MFE -12.78
Energy contribution -13.50
Covariance contribution 0.72
Combinations/Pair 1.20
Mean z-score -1.65
Structure conservation index 0.51
SVM decision value -0.02
SVM RNA-class probability 0.525421
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8214917 91 - 23771897
GUGCACCACCAGCUAC--------AUUC---CACCCAACACC-CACUAGCCACCCC--UCCCACCUGGCUGUGGAUGCUGUGCGCAAGUGCGCAGAAUCCGCA--UC
((((............--------....---.......((.(-(((.(((((....--.......))))))))).))(((((((....))))))).....)))--). ( -26.30)
>DroSec_CAF1 37100 91 - 1
GUGCACCACCAGCUCC--------AUUC---CAUCCACCACCCCACCAGUCCUCUC--AACCACCUGGCUGUGGAUGCUGUG-GCAAUUGCGCAGAAUCCGCA--UC
(((((((((.((((((--------((.(---((.......................--.......)))..))))).))))))-)....)))))..........--.. ( -21.81)
>DroSim_CAF1 35104 92 - 1
GUGCACCACCAGCUCC--------AUUC---CAUCCACCACCCCACUAGCCCCCUC--CUCCACCUGGCUGUGGAUGCUGUGCGCAAGUGCGCAGAAUCCGCA--UC
((((............--------....---(((((((.........((((.....--........)))))))))))(((((((....))))))).....)))--). ( -25.42)
>DroEre_CAF1 40716 102 - 1
GUGCACCACCAGCGCCCCCUCGACCUUCCACCAUCCACCACC-CACUGGACUCGCCA-CCCCACCUGGCUGUGGAUGCUGGA-GCUGAUGCGCAGAAUCCGCA--UC
((((.......))))..........(((((.(((((((..((-....))....((((-.......)))).))))))).))))-)..((((((.......))))--)) ( -31.40)
>DroYak_CAF1 38937 79 - 1
GUGCACCACC--------------------------CCCAAC-CAAUGGAUUCGCCAUCCCCACCUGGCUGUGGAUGCUGGA-AGUGAUGCGCAGAAUCCGCAAAUC
(((((.(((.--------------------------.(((..-...))).((((.(((((.((......)).))))).))))-.))).))))).............. ( -21.20)
>consensus
GUGCACCACCAGCUCC________AUUC___CAUCCACCACC_CACUAGACCCCCC__CCCCACCUGGCUGUGGAUGCUGUG_GCAAAUGCGCAGAAUCCGCA__UC
...............................................((((...............))))((((((.(((((........))))).))))))..... (-12.78 = -13.50 +   0.72)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 8,214,946 – 8,215,038
Length 92
Sequences 4
Columns 105
Reading direction reverse
Mean pairwise identity 83.14
Mean single sequence MFE -25.61
Consensus MFE -17.00
Energy contribution -16.62
Covariance contribution -0.38
Combinations/Pair 1.10
Mean z-score -2.19
Structure conservation index 0.66
SVM decision value 0.92
SVM RNA-class probability 0.881139
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8214946 92 - 23771897
UGCAGGUUGCCAUAGCGGCCACAUCGCCAUGUGCACCACCAGCUAC--------AUUC---CACCCAACACC-CACUAGCCACCCC-UCCCACCUGGCUGUGGAU
.((.(((((((((.((((.....)))).))).)))..))).))...--------....---..........(-(((.(((((....-.......))))))))).. ( -25.90)
>DroSec_CAF1 37128 93 - 1
UGCAGGUUACCAUAGUGGCCACAUCGCCAUGUGCACCACCAGCUCC--------AUUC---CAUCCACCACCCCACCAGUCCUCUC-AACCACCUGGCUGUGGAU
.((.(((...((((.((((......))))))))....))).))...--------....---......((((....((((.......-......))))..)))).. ( -19.62)
>DroSim_CAF1 35133 93 - 1
UGCAGGUUGCCAUAGUGGCCACAUCGCCAUGUGCACCACCAGCUCC--------AUUC---CAUCCACCACCCCACUAGCCCCCUC-CUCCACCUGGCUGUGGAU
.((.((((((....(((((......)))))..)))..))).))...--------....---...........((((.((((.....-........)))))))).. ( -23.92)
>DroEre_CAF1 40744 104 - 1
UGCAGGUUGCCAUGGUGGCCACAUCGCCAUGUGCACCACCAGCGCCCCCUCGACCUUCCACCAUCCACCACC-CACUGGACUCGCCACCCCACCUGGCUGUGGAU
.((.((((((((((((((.....)))))))).)))..))).)).............(((((..((((.....-...))))...((((.......)))).))))). ( -33.00)
>consensus
UGCAGGUUGCCAUAGUGGCCACAUCGCCAUGUGCACCACCAGCUCC________AUUC___CAUCCACCACC_CACUAGCCCCCCC_CCCCACCUGGCUGUGGAU
(((.((((((....))))))((((....)))))))((((.(((.....................................................))))))).. (-17.00 = -16.62 +  -0.38)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:43:54 2006