Locus 8292

Sequence ID 3L_DroMel_CAF1
Location 21,740,849 – 21,740,968
Length 119
Max. P 0.995044
window13566 window13567

overview

Window 6

Location 21,740,849 – 21,740,968
Length 119
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 95.00
Mean single sequence MFE -38.24
Consensus MFE -35.18
Energy contribution -35.26
Covariance contribution 0.08
Combinations/Pair 1.12
Mean z-score -1.63
Structure conservation index 0.92
SVM decision value 1.87
SVM RNA-class probability 0.980770
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21740849 119 + 23771897
CAGCAGCUCCAGGAGCUGCAUCGCCACUUGGCAGAUUAUGACGACAACUAUACUGACAGGCAGAGCCAGAGGAAACUACUCCAAGAAACUAGCCAGAUUCAGUUGCAGUCGCAAUCGGA-
..(((((((...)))))))...(((....))).((((.((((..(((((...(((.(.(((...)))...(((......))).........).)))....)))))..)))).))))...- ( -38.20)
>DroSec_CAF1 22752 120 + 1
CAGCAGCUCCAGGAGCUGCAUCGCCACUUGGCAGAUUAUGACGACAACUAUGCUGACAGGCAGAGCCAGAGGGAACUACUCCAAGAAACUAGCCAGAUUCAGUUGCAGUCGCAGUCGGAG
..(((((((...))))))).(((((....))).((((.((((..(((((...(((.(.(((...)))....(((.....))).........).)))....)))))..)))).)))).)). ( -39.00)
>DroSim_CAF1 27629 120 + 1
CAGCAGCUCCAGGAGCUGCAUCGCCACUUGGCAGAUUAUGACGACAACUAUGCUGACAGGCAGAGCCAGAGGAAACUACUCCAAGAAACUAGCCAGAUUCAGUUGCAGUCGCAGUCGGAG
..(((((((...))))))).(((((....))).((((.((((..(((((...(((.(.(((...)))...(((......))).........).)))....)))))..)))).)))).)). ( -39.40)
>DroEre_CAF1 8877 120 + 1
CAGCAGCUCCAGGAGCUGCAUCGCCAGUUGGCAGAUUAUGACGACAACUAUGCUGACAGGCAGCGCCAGAAGAAACUACUCCAAGAAACUAGCCAGAUUUUGUGGCAGUUGCAGUCGGAU
..(((((((...)))))))((((((....)))......((((..(((((..((((.....))))((((.((((..((......))...((....)).)))).)))))))))..))))))) ( -39.40)
>DroYak_CAF1 80788 120 + 1
CAGCAGCUUCAGGAGCUGCAUCGCCAGUUGGCAGAUUAUGACGACAACUAUGCUGACAGGCAGAGCCAGAGGAAACUACUCCAAGAAACUAGCCAGAUUUUGUUGCAGUUGCAGUCGGAU
..(((((((...)))))))((((((....))).((((..(((..((((....(((.(.(((...)))...(((......))).........).))).....))))..)))..)))).))) ( -35.20)
>consensus
CAGCAGCUCCAGGAGCUGCAUCGCCACUUGGCAGAUUAUGACGACAACUAUGCUGACAGGCAGAGCCAGAGGAAACUACUCCAAGAAACUAGCCAGAUUCAGUUGCAGUCGCAGUCGGAG
..(((((((...)))))))...(((....))).((((..(((..(((((...(((.(.(((...)))...(((......))).........).)))....)))))..)))..)))).... (-35.18 = -35.26 +   0.08)

alignment

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secondary structure

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dotplot

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Window 7

Location 21,740,849 – 21,740,968
Length 119
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 95.00
Mean single sequence MFE -41.46
Consensus MFE -38.12
Energy contribution -38.76
Covariance contribution 0.64
Combinations/Pair 1.08
Mean z-score -1.85
Structure conservation index 0.92
SVM decision value 2.54
SVM RNA-class probability 0.995044
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21740849 119 - 23771897
-UCCGAUUGCGACUGCAACUGAAUCUGGCUAGUUUCUUGGAGUAGUUUCCUCUGGCUCUGCCUGUCAGUAUAGUUGUCGUCAUAAUCUGCCAAGUGGCGAUGCAGCUCCUGGAGCUGCUG
-...(((.(((((((..(((((....(((.((((....((((....))))...))))..)))..))))).))))))).)))...(((.(((....))))))(((((((...))))))).. ( -43.90)
>DroSec_CAF1 22752 120 - 1
CUCCGACUGCGACUGCAACUGAAUCUGGCUAGUUUCUUGGAGUAGUUCCCUCUGGCUCUGCCUGUCAGCAUAGUUGUCGUCAUAAUCUGCCAAGUGGCGAUGCAGCUCCUGGAGCUGCUG
....(((.(((((((...((((....(((.((((....((((...))))....))))..)))..))))..))))))).)))...(((.(((....))))))(((((((...))))))).. ( -41.70)
>DroSim_CAF1 27629 120 - 1
CUCCGACUGCGACUGCAACUGAAUCUGGCUAGUUUCUUGGAGUAGUUUCCUCUGGCUCUGCCUGUCAGCAUAGUUGUCGUCAUAAUCUGCCAAGUGGCGAUGCAGCUCCUGGAGCUGCUG
....(((.(((((((...((((....(((.((((....((((....))))...))))..)))..))))..))))))).)))...(((.(((....))))))(((((((...))))))).. ( -43.70)
>DroEre_CAF1 8877 120 - 1
AUCCGACUGCAACUGCCACAAAAUCUGGCUAGUUUCUUGGAGUAGUUUCUUCUGGCGCUGCCUGUCAGCAUAGUUGUCGUCAUAAUCUGCCAACUGGCGAUGCAGCUCCUGGAGCUGCUG
.(((((..(.((((((((.......)))).)))).))))))((((((((....((.(((((..(((.((.((((((.((........)).)))))))))))))))).)).)))))))).. ( -41.30)
>DroYak_CAF1 80788 120 - 1
AUCCGACUGCAACUGCAACAAAAUCUGGCUAGUUUCUUGGAGUAGUUUCCUCUGGCUCUGCCUGUCAGCAUAGUUGUCGUCAUAAUCUGCCAACUGGCGAUGCAGCUCCUGAAGCUGCUG
....(((.(((((((...........((((((......((((....)))).)))))).(((......)))))))))).)))...(((.(((....))))))((((((.....)))))).. ( -36.70)
>consensus
AUCCGACUGCGACUGCAACUGAAUCUGGCUAGUUUCUUGGAGUAGUUUCCUCUGGCUCUGCCUGUCAGCAUAGUUGUCGUCAUAAUCUGCCAAGUGGCGAUGCAGCUCCUGGAGCUGCUG
....(((.(((((((...((((....(((.((..((..((((....))))...))..)))))..))))..))))))).)))...(((.(((....))))))(((((((...))))))).. (-38.12 = -38.76 +   0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:11:42 2006