Locus 6095

Sequence ID X_DroMel_CAF1
Location 15,637,262 – 15,637,458
Length 196
Max. P 0.896671
window9900 window9901

overview

Window 0

Location 15,637,262 – 15,637,381
Length 119
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 84.68
Mean single sequence MFE -35.30
Consensus MFE -29.07
Energy contribution -29.41
Covariance contribution 0.34
Combinations/Pair 1.10
Mean z-score -2.28
Structure conservation index 0.82
SVM decision value 0.99
SVM RNA-class probability 0.896671
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15637262 119 - 22224390
GGAAAGCUCAUCUUUUCCAGCACUGGGUGCAUUGUACCUCCAGUCGAUUUGAUUGGUGAACCAAACUGGUUAUAUUU-UAGCCAGUGAUAAGGGGUUUUCGGAUCUGGACAAAGCAUUUG
((((((......)))))).((...((((((...))))))...((((((((((((((....))))((((((((.....-))))))))............)))))))..)))...))..... ( -35.70)
>DroSec_CAF1 1977 115 - 1
GGAAAGCUCGUCUUUUCCAGCACUGAGUGCAUUGAACCUCUAGUCUAUUUGAUAGGUGAACCAAACUGGUUAUAUUC-UAGCCGGUGAUAAGGGGUUUUCAGCUCUGCACAAAUCA----
((((((......)))))).(((..((((.....((((((((.(((.........((....))..((((((((.....-))))))))))).))))))))...)))))))........---- ( -36.50)
>DroSim_CAF1 1980 110 - 1
----------UCUUUUCCAGCACUGGGUGCAUUGAACCUCUAGUCUAUUUGAUAGGUGAACCAAACUGGUUAUAUUCUUAGCCGGUGAUAAGGGGUUUUCGGAUCUGGACAAUUCAUUUG
----------(((..(((.((((...))))...((((((((.(((.........((....))..((((((((......))))))))))).))))))))..)))...)))........... ( -33.70)
>consensus
GGAAAGCUC_UCUUUUCCAGCACUGGGUGCAUUGAACCUCUAGUCUAUUUGAUAGGUGAACCAAACUGGUUAUAUUC_UAGCCGGUGAUAAGGGGUUUUCGGAUCUGGACAAAUCAUUUG
...............(((((..((((.......((((((((.(((.........((....))..((((((((......))))))))))).))))))))))))..)))))........... (-29.07 = -29.41 +   0.34)

alignment

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secondary structure

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dotplot

Postscript

Window 1

Location 15,637,341 – 15,637,458
Length 117
Sequences 3
Columns 117
Reading direction reverse
Mean pairwise identity 90.03
Mean single sequence MFE -35.80
Consensus MFE -28.12
Energy contribution -28.73
Covariance contribution 0.61
Combinations/Pair 1.03
Mean z-score -2.77
Structure conservation index 0.79
SVM decision value 0.72
SVM RNA-class probability 0.833866
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15637341 117 - 22224390
UACAGGUUUAUUAUCAAACACGGUGCAGUGUUGCAGUUAACUGCUUAGCAUUAAAGCCCAAUAUAGGCAAGAGUGUUGGAAAGCUCAUCUUUUCCAGCACUGGGUGCAUUGUACCUC
.....((((......))))..((((((((...((((....))))...(((((...(((.......)))...((((((((((((......)))))))))))).))))))))))))).. ( -40.30)
>DroSec_CAF1 2052 117 - 1
UACAGGUUUAUUAUCAAACACGGUGCAGUGUUGCAGUUAACUGCUUUGCAUUAAAGCCCAAUAUAGGCAAGAGCGUUGGAAAGCUCGUCUUUUCCAGCACUGAGUGCAUUGAACCUC
...(((((((......(((((......)))))((((....))))..((((((...(((.......)))...((.(((((((((......))))))))).)).)))))).))))))). ( -36.60)
>DroSim_CAF1 2060 105 - 1
UACAGGUUUAUUAUCAAACACGGUGCAGUGUUGCAGUUAACUGCUUUGCGUUAAAGCCCAAUAUAGGCAAGAGCG------------UCUUUUCCAGCACUGGGUGCAUUGAACCUC
...(((((((.......((.((((((.(((..((((....))))..)))(((...(((.......)))...))).------------.........)))))).))....))))))). ( -30.50)
>consensus
UACAGGUUUAUUAUCAAACACGGUGCAGUGUUGCAGUUAACUGCUUUGCAUUAAAGCCCAAUAUAGGCAAGAGCGUUGGAAAGCUC_UCUUUUCCAGCACUGGGUGCAUUGAACCUC
...(((((((.......((.(((((((((((.((((....))))...)))))...(((.......)))((((..(((....)))...)))).....)))))).))....))))))). (-28.12 = -28.73 +   0.61)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:04:01 2006