Locus 6728

Sequence ID 3L_DroMel_CAF1
Location 17,998,094 – 17,998,186
Length 92
Max. P 0.970557
window10942 window10943

overview

Window 2

Location 17,998,094 – 17,998,186
Length 92
Sequences 5
Columns 93
Reading direction forward
Mean pairwise identity 91.26
Mean single sequence MFE -23.80
Consensus MFE -17.62
Energy contribution -17.98
Covariance contribution 0.36
Combinations/Pair 1.04
Mean z-score -3.21
Structure conservation index 0.74
SVM decision value 1.66
SVM RNA-class probability 0.970557
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17998094 92 + 23771897
GUGGAACCGCAACAACUGCGAAAAAUGCAACGAGGAAAAGCUUUGUCAUACAAUUUUCCAGUUGCAUUAGACAAAAGUUUUUA-CACAGAAAA
((((((.((((.....))))...((((((((..((((((...(((.....))))))))).))))))))..........)))))-)........ ( -23.10)
>DroSec_CAF1 121084 92 + 1
GUGGAACCGCAACAACUGCGAAAAAUGCAACGAGGAAAAGCUUUGUCAUACAAUUUUCCAGUUGCAUUAGAAAAAAGUUUUUC-CACAGAAAA
((((((.((((.....))))...((((((((..((((((...(((.....))))))))).))))))))............)))-)))...... ( -28.10)
>DroSim_CAF1 130012 92 + 1
GUGGAACCGCAACAACUGCGAAAAAUGCAACGAGGAAAAGCUUUGUCAUACAAUUUUCCAGUUGCAUUAGACAAAAGUUUUUC-CACAGAAAA
((((((.((((.....))))...((((((((..((((((...(((.....))))))))).))))))))............)))-)))...... ( -28.10)
>DroEre_CAF1 123066 93 + 1
GUGGAACCUCAACAAUUGCGGAAAAUGCAACGAGGAAAAGCUUUGCCAUACAAUUUUCCAGCUGCAUUAGACAAACGUUUUUUCGACAGCAAA
.(((((((((.....(((((.....))))).)))).......(((.....)))..)))))((((((..((((....))))..).).))))... ( -18.00)
>DroYak_CAF1 128612 93 + 1
GUGGAACCACAACAAUUUUGAAAAAUGCAACGAGGAAAAGCUUUGGCGCACAAUUUUCCAGUUGCAUUAGACAAAAGUUUUUUUGCCAGAAAA
(((....))).....(((((...((((((((..((((((...(((.....))))))))).))))))))...)))))................. ( -21.70)
>consensus
GUGGAACCGCAACAACUGCGAAAAAUGCAACGAGGAAAAGCUUUGUCAUACAAUUUUCCAGUUGCAUUAGACAAAAGUUUUUC_CACAGAAAA
..(((((((((.....))))...((((((((..((((((...(((.....))))))))).))))))))........)))))............ (-17.62 = -17.98 +   0.36)

alignment

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secondary structure

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dotplot

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Window 3

Location 17,998,094 – 17,998,186
Length 92
Sequences 5
Columns 93
Reading direction reverse
Mean pairwise identity 91.26
Mean single sequence MFE -23.38
Consensus MFE -17.52
Energy contribution -17.36
Covariance contribution -0.16
Combinations/Pair 1.12
Mean z-score -2.28
Structure conservation index 0.75
SVM decision value 0.91
SVM RNA-class probability 0.879054
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17998094 92 - 23771897
UUUUCUGUG-UAAAAACUUUUGUCUAAUGCAACUGGAAAAUUGUAUGACAAAGCUUUUCCUCGUUGCAUUUUUCGCAGUUGUUGCGGUUCCAC
.......((-(((.((((..((...((((((((.(((((((((.....)))...))))))..))))))))...)).)))).)))))....... ( -20.70)
>DroSec_CAF1 121084 92 - 1
UUUUCUGUG-GAAAAACUUUUUUCUAAUGCAACUGGAAAAUUGUAUGACAAAGCUUUUCCUCGUUGCAUUUUUCGCAGUUGUUGCGGUUCCAC
......(((-(((............((((((((.(((((((((.....)))...))))))..))))))))..((((((...)))))))))))) ( -25.20)
>DroSim_CAF1 130012 92 - 1
UUUUCUGUG-GAAAAACUUUUGUCUAAUGCAACUGGAAAAUUGUAUGACAAAGCUUUUCCUCGUUGCAUUUUUCGCAGUUGUUGCGGUUCCAC
......(((-(((.(((..((((..((((((((.(((((((((.....)))...))))))..))))))))....))))..)))....)))))) ( -27.40)
>DroEre_CAF1 123066 93 - 1
UUUGCUGUCGAAAAAACGUUUGUCUAAUGCAGCUGGAAAAUUGUAUGGCAAAGCUUUUCCUCGUUGCAUUUUCCGCAAUUGUUGAGGUUCCAC
.........(((..((((.((((..((((((((.(((((((((.....)))...))))))..))))))))....)))).))))....)))... ( -21.60)
>DroYak_CAF1 128612 93 - 1
UUUUCUGGCAAAAAAACUUUUGUCUAAUGCAACUGGAAAAUUGUGCGCCAAAGCUUUUCCUCGUUGCAUUUUUCAAAAUUGUUGUGGUUCCAC
.....(((......((((((((...((((((((.((((((....((......))))))))..))))))))...)))))..)))......))). ( -22.00)
>consensus
UUUUCUGUG_AAAAAACUUUUGUCUAAUGCAACUGGAAAAUUGUAUGACAAAGCUUUUCCUCGUUGCAUUUUUCGCAGUUGUUGCGGUUCCAC
..............(((..((((..((((((((.(((((((((.....)))...))))))..))))))))....))))..))).......... (-17.52 = -17.36 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:28:35 2006