Locus 2619

Sequence ID 2L_DroMel_CAF1
Location 7,270,351 – 7,270,456
Length 105
Max. P 0.974655
window4174 window4175

overview

Window 4

Location 7,270,351 – 7,270,456
Length 105
Sequences 5
Columns 109
Reading direction forward
Mean pairwise identity 78.17
Mean single sequence MFE -23.04
Consensus MFE -16.34
Energy contribution -16.22
Covariance contribution -0.12
Combinations/Pair 1.19
Mean z-score -2.19
Structure conservation index 0.71
SVM decision value 1.73
SVM RNA-class probability 0.974655
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7270351 105 + 22407834
UCUUGCACUUGGCUGCCACCUAAAACAGCAUUUGUAGGUGCACUAAAAAAAAAUAAUUGAACAUCU---AAGA-CUUAGAAGUAUAAUAAAACGAAGUCAAAUGCAUUG
...((((.((((((((.(((((.((......)).)))))))..............((((.((.(((---(...-..)))).)).)))).......)))))).))))... ( -20.90)
>DroSec_CAF1 63494 105 + 1
UCUUGCACUUGGCUGCCACCUAAGACAGCAUUUGUAGGUGCACUAAGA-AAAAUAUUUCAACUCAA---AAGAAUUUAGAAUUAUAAUAAAACGAAGCCAAAUGCAUCU
...((((.((((((((.(((((.((......)).))))))).((((((-((....))))...((..---..))..))))................)))))).))))... ( -21.90)
>DroSim_CAF1 70099 105 + 1
UCUUGCACUUGGCUGCCACCUAAGACAGCAUUUGUAGGUGCACUAAGA-AAAAUAUUUCAACUGUU---AAGAAUUUAGAAUUAUCACAAAACGAAGCCAAAUGCAUCU
...((((.((((((((.(((((.((......)).))))))).((((((-((....))))..((...---.))...))))................)))))).))))... ( -22.70)
>DroEre_CAF1 64415 107 + 1
UCUUGCACUUGGCUGCCGCCUAAAACAGCAUUUGUCGGUGCACUAAGA-GAAAUAGCUGGGCACCUCAGAAGA-CUUAUAAGUACAACCAAGCAAAGCCAAUUGCAUCU
...((((.((((((...((...........((((..(((((.(((..(-....)...)))))))).))))..(-((....)))........))..)))))).))))... ( -26.90)
>DroYak_CAF1 64371 90 + 1
UCUUGCACUUGGCUGCCACCUAAAACAGCGUUUGUAGGUGCACUCAGA-AAAAUAACUAAGCAC---------------AAGUGAAGC---ACAAAGCCAAAUGCAACU
..(((((.((((((((.(((((((((...)))).))))))).......-...............---------------..(((...)---))..)))))).))))).. ( -22.80)
>consensus
UCUUGCACUUGGCUGCCACCUAAAACAGCAUUUGUAGGUGCACUAAGA_AAAAUAAUUCAACACCU___AAGA_CUUAGAAGUAUAACAAAACGAAGCCAAAUGCAUCU
...((((.((((((((.(((((.((......)).)))))))........................................((........))..)))))).))))... (-16.34 = -16.22 +  -0.12)

alignment

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secondary structure

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dotplot

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Window 5

Location 7,270,351 – 7,270,456
Length 105
Sequences 5
Columns 109
Reading direction reverse
Mean pairwise identity 78.17
Mean single sequence MFE -28.14
Consensus MFE -17.98
Energy contribution -18.54
Covariance contribution 0.56
Combinations/Pair 1.04
Mean z-score -2.28
Structure conservation index 0.64
SVM decision value 1.69
SVM RNA-class probability 0.972405
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7270351 105 - 22407834
CAAUGCAUUUGACUUCGUUUUAUUAUACUUCUAAG-UCUU---AGAUGUUCAAUUAUUUUUUUUUAGUGCACCUACAAAUGCUGUUUUAGGUGGCAGCCAAGUGCAAGA
...((((((((.((.(..............(((((-....---(((((......)))))...)))))..((((((.((((...))))))))))).)).))))))))... ( -20.10)
>DroSec_CAF1 63494 105 - 1
AGAUGCAUUUGGCUUCGUUUUAUUAUAAUUCUAAAUUCUU---UUGAGUUGAAAUAUUUU-UCUUAGUGCACCUACAAAUGCUGUCUUAGGUGGCAGCCAAGUGCAAGA
...(((((((((((.(....((((.((((((.(((....)---)))))))).))))....-........((((((((.....)))...)))))).)))))))))))... ( -28.00)
>DroSim_CAF1 70099 105 - 1
AGAUGCAUUUGGCUUCGUUUUGUGAUAAUUCUAAAUUCUU---AACAGUUGAAAUAUUUU-UCUUAGUGCACCUACAAAUGCUGUCUUAGGUGGCAGCCAAGUGCAAGA
...(((((((((((.(........................---..((.(.((((....))-))..).))((((((((.....)))...)))))).)))))))))))... ( -25.30)
>DroEre_CAF1 64415 107 - 1
AGAUGCAAUUGGCUUUGCUUGGUUGUACUUAUAAG-UCUUCUGAGGUGCCCAGCUAUUUC-UCUUAGUGCACCGACAAAUGCUGUUUUAGGCGGCAGCCAAGUGCAAGA
...((((.(((((((((.(((((.(((((......-....(((.(....)))).......-....))))))))))))))((((((.....))))))))))).))))... ( -34.10)
>DroYak_CAF1 64371 90 - 1
AGUUGCAUUUGGCUUUGU---GCUUCACUU---------------GUGCUUAGUUAUUUU-UCUGAGUGCACCUACAAACGCUGUUUUAGGUGGCAGCCAAGUGCAAGA
..((((((((((((....---(((......---------------(..(((((.......-.)))))..)(((((.((((...)))))))))))))))))))))))).. ( -33.20)
>consensus
AGAUGCAUUUGGCUUCGUUUUGUUAUACUUCUAAA_UCUU___AGGUGUUCAAAUAUUUU_UCUUAGUGCACCUACAAAUGCUGUUUUAGGUGGCAGCCAAGUGCAAGA
...(((((((((((.(......................................((((.......))))((((((((.....)))...)))))).)))))))))))... (-17.98 = -18.54 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:32:06 2006