Locus 8258

Sequence ID 3R_DroMel_CAF1
Location 22,103,498 – 22,103,589
Length 91
Max. P 0.620072
window13318 window13319

overview

Window 8

Location 22,103,498 – 22,103,589
Length 91
Sequences 6
Columns 99
Reading direction forward
Mean pairwise identity 91.37
Mean single sequence MFE -19.13
Consensus MFE -15.72
Energy contribution -15.75
Covariance contribution 0.03
Combinations/Pair 1.06
Mean z-score -1.87
Structure conservation index 0.82
SVM decision value 0.03
SVM RNA-class probability 0.550256
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22103498 91 + 27905053
CCGCAGAGGCAACAACUUUUGUUAAACAUUUGUUACCAGCAGCC--------AUACCACUGGCAGCCCCAACAACCAUCACUUACCAGUGGAAACUAAU
((((...((.(((((....((.....)).))))).)).((.(((--------(......)))).)).....................))))........ ( -17.20)
>DroSec_CAF1 26345 90 + 1
CCGCAGAGGCAACAACUUUUGUUAAACAUUUGUUACCAGCAGCC--------AUACCACUGGCAGCC-CAACAACCAUCACUUACCAGUGGAAACUAAU
((((...((.(((((....((.....)).))))).)).((.(((--------(......)))).)).-...................))))........ ( -17.20)
>DroSim_CAF1 26187 91 + 1
CCGCAGAGGCAACAACUUUUGUUAAACAUUUGUUACCAGCAGCC--------AUACCACUGGCAGCCCCAACAACCAUCACUUACCAGUGGAAACUAAU
((((...((.(((((....((.....)).))))).)).((.(((--------(......)))).)).....................))))........ ( -17.20)
>DroEre_CAF1 26858 99 + 1
CCGCAGAGGCAACAACUUUUGUUAAACAUUUGUUACCAGCAGCCAUACUGCCAUACCACUGGCAGCCCCAACAGCCAUCACUUACCAGUGGAAACUAAU
..((((.(((((((.....)))).......(((.....))))))...))))....(((((((......................)))))))........ ( -20.95)
>DroYak_CAF1 25868 99 + 1
CCGCAGAGGCAACAACUUUUGUUAAACAUUUGUUACCAGCAGCCAUGCUGCCAUACCACUGGCAGCCCCAACAGCCAUCACUUACCAGUGGAAACUAAU
((((...(((((((.....)))).......(((.....))))))..(((((((......))))))).....................))))........ ( -24.10)
>DroAna_CAF1 27059 91 + 1
UCGCAGUGGCAGGAACUUUUGCUAAACAUUUGUUACCAGCAGCA--------AUACCACUGGCACUACCAACAGCCAUCACUUACCAGUGGAAACUAAU
..((..(((((((....)))))))......(((.....))))).--------...(((((((......................)))))))........ ( -18.15)
>consensus
CCGCAGAGGCAACAACUUUUGUUAAACAUUUGUUACCAGCAGCC________AUACCACUGGCAGCCCCAACAACCAUCACUUACCAGUGGAAACUAAU
..(((((((......))))))).......((((.....)))).............(((((((......................)))))))........ (-15.72 = -15.75 +   0.03)

alignment

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secondary structure

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dotplot

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Window 9

Location 22,103,498 – 22,103,589
Length 91
Sequences 6
Columns 99
Reading direction reverse
Mean pairwise identity 91.37
Mean single sequence MFE -29.95
Consensus MFE -24.50
Energy contribution -25.03
Covariance contribution 0.53
Combinations/Pair 1.04
Mean z-score -2.03
Structure conservation index 0.82
SVM decision value 0.18
SVM RNA-class probability 0.620072
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22103498 91 - 27905053
AUUAGUUUCCACUGGUAAGUGAUGGUUGUUGGGGCUGCCAGUGGUAU--------GGCUGCUGGUAACAAAUGUUUAACAAAAGUUGUUGCCUCUGCGG
...((((.(((((((((.((..(.......)..)))))))))))...--------))))((.((((((((.((.....))....))))))))...)).. ( -28.30)
>DroSec_CAF1 26345 90 - 1
AUUAGUUUCCACUGGUAAGUGAUGGUUGUUG-GGCUGCCAGUGGUAU--------GGCUGCUGGUAACAAAUGUUUAACAAAAGUUGUUGCCUCUGCGG
...((((.(((((((((.(((((....))).-.)))))))))))...--------))))((.((((((((.((.....))....))))))))...)).. ( -28.40)
>DroSim_CAF1 26187 91 - 1
AUUAGUUUCCACUGGUAAGUGAUGGUUGUUGGGGCUGCCAGUGGUAU--------GGCUGCUGGUAACAAAUGUUUAACAAAAGUUGUUGCCUCUGCGG
...((((.(((((((((.((..(.......)..)))))))))))...--------))))((.((((((((.((.....))....))))))))...)).. ( -28.30)
>DroEre_CAF1 26858 99 - 1
AUUAGUUUCCACUGGUAAGUGAUGGCUGUUGGGGCUGCCAGUGGUAUGGCAGUAUGGCUGCUGGUAACAAAUGUUUAACAAAAGUUGUUGCCUCUGCGG
..(((((..((((....))))..))))).....(((((((......)))))))....((((.((((((((.((.....))....))))))))...)))) ( -32.90)
>DroYak_CAF1 25868 99 - 1
AUUAGUUUCCACUGGUAAGUGAUGGCUGUUGGGGCUGCCAGUGGUAUGGCAGCAUGGCUGCUGGUAACAAAUGUUUAACAAAAGUUGUUGCCUCUGCGG
..(((((..((((....))))..))))).....(((((((......)))))))....((((.((((((((.((.....))....))))))))...)))) ( -34.90)
>DroAna_CAF1 27059 91 - 1
AUUAGUUUCCACUGGUAAGUGAUGGCUGUUGGUAGUGCCAGUGGUAU--------UGCUGCUGGUAACAAAUGUUUAGCAAAAGUUCCUGCCACUGCGA
..(((((..((((....))))..))))).((((((((((((..(...--------..)..)))))).....((.....)).......))))))...... ( -26.90)
>consensus
AUUAGUUUCCACUGGUAAGUGAUGGCUGUUGGGGCUGCCAGUGGUAU________GGCUGCUGGUAACAAAUGUUUAACAAAAGUUGUUGCCUCUGCGG
........(((((((((.(((((....)))...))))))))))).............((((.((((((((.((.....))....))))))))...)))) (-24.50 = -25.03 +   0.53)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:07:06 2006