Locus 7509

Sequence ID X_DroMel_CAF1
Location 18,730,957 – 18,731,066
Length 109
Max. P 0.972635
window12317 window12318

overview

Window 7

Location 18,730,957 – 18,731,066
Length 109
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 83.64
Mean single sequence MFE -34.24
Consensus MFE -27.15
Energy contribution -28.19
Covariance contribution 1.04
Combinations/Pair 1.04
Mean z-score -2.39
Structure conservation index 0.79
SVM decision value 1.70
SVM RNA-class probability 0.972635
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18730957 109 + 22224390
-----------AUUUAAAGCAAACAAAUUUAUUGCCGUGCAGGCCAGGAGAUUUGUUUUCCAAUUGGCCUGGAGCAGGAGCAGGAGCAGGAGCAUUGGAGGGCAGUGAAUGAAGCCAACU
-----------.......((......((((((((((((.((((((((((((.....)))))...)))))))..)).....(((..((....)).)))...))))))))))...))..... ( -33.40)
>DroSec_CAF1 3860 103 + 1
-----------GUUUAAGGCAAACAAAUUUAUUGCCGUGCAGGCCAGGAGAUUUGUUUUCCAAUUGGCCUGGAGCAGGA------GCAGGAGCAUUGGAGGGCAGUGAAUGAAGCCAACU
-----------......(((......((((((((((((.((((((((((((.....)))))...)))))))..))....------((....)).......))))))))))...))).... ( -37.10)
>DroSim_CAF1 3921 103 + 1
-----------AUUUAAGGCAAACAAAUUUAUUGCCGUGCAGGCCAGGAGAUUUGUUUUCCAAUUGGCCUGGAGCAGGA------GCAGGAGCAUUGGAGGGCAGUGAAUGAAGCCAACU
-----------......(((......((((((((((((.((((((((((((.....)))))...)))))))..))....------((....)).......))))))))))...))).... ( -37.10)
>DroEre_CAF1 1866 108 + 1
UCUAUAGAUCUUAUUGAAGCACUCAAAUUUCUUGCCGUGCAGGCAAGGGGAUUUGUUUUCCAAUUGGCCUGGAGAA------------GGAGCAUUGGAGGGCAGUGAAUGAAGCCAACU
.............(((...((.(((..(..((((((.....))))))..)..((((((((((((...(((.....)------------))...))))))))))))))).))....))).. ( -31.50)
>DroYak_CAF1 3219 108 + 1
UUGAUAGUUAUUUUUGAGGCACUCAAAUUUAUUGCCGUGCAGGCAAGGAGAUUUGUUUUCCAAUUGGCCUGGAGCA------------GGAGCAUUGGAGGGCAGUGAAUGAAGCCAACU
.................(((..(((..(((((((((.(.(((((..(((((.....)))))......((((...))------------)).)).))).).)))))))))))).))).... ( -32.10)
>consensus
___________AUUUAAGGCAAACAAAUUUAUUGCCGUGCAGGCCAGGAGAUUUGUUUUCCAAUUGGCCUGGAGCAGGA______GCAGGAGCAUUGGAGGGCAGUGAAUGAAGCCAACU
.................(((......((((((((((...((((((((((((.....)))))...)))))))..((................)).......))))))))))...))).... (-27.15 = -28.19 +   1.04)

alignment

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secondary structure

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dotplot

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Window 8

Location 18,730,957 – 18,731,066
Length 109
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 83.64
Mean single sequence MFE -24.55
Consensus MFE -17.41
Energy contribution -17.61
Covariance contribution 0.20
Combinations/Pair 1.10
Mean z-score -1.84
Structure conservation index 0.71
SVM decision value 0.39
SVM RNA-class probability 0.716717
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18730957 109 - 22224390
AGUUGGCUUCAUUCACUGCCCUCCAAUGCUCCUGCUCCUGCUCCUGCUCCAGGCCAAUUGGAAAACAAAUCUCCUGGCCUGCACGGCAAUAAAUUUGUUUGCUUUAAAU-----------
....(((..........))).((((((...((((.....((....))..))))...))))))((((((((......(((.....))).....)))))))).........----------- ( -25.20)
>DroSec_CAF1 3860 103 - 1
AGUUGGCUUCAUUCACUGCCCUCCAAUGCUCCUGC------UCCUGCUCCAGGCCAAUUGGAAAACAAAUCUCCUGGCCUGCACGGCAAUAAAUUUGUUUGCCUUAAAC-----------
....(((..............((((((...((((.------........))))...))))))((((((((......(((.....))).....)))))))))))......----------- ( -24.20)
>DroSim_CAF1 3921 103 - 1
AGUUGGCUUCAUUCACUGCCCUCCAAUGCUCCUGC------UCCUGCUCCAGGCCAAUUGGAAAACAAAUCUCCUGGCCUGCACGGCAAUAAAUUUGUUUGCCUUAAAU-----------
....(((..............((((((...((((.------........))))...))))))((((((((......(((.....))).....)))))))))))......----------- ( -24.20)
>DroEre_CAF1 1866 108 - 1
AGUUGGCUUCAUUCACUGCCCUCCAAUGCUCC------------UUCUCCAGGCCAAUUGGAAAACAAAUCCCCUUGCCUGCACGGCAAGAAAUUUGAGUGCUUCAAUAAGAUCUAUAGA
.(((((...((((((......((((((...((------------(.....)))...))))))...........((((((.....)))))).....))))))..)))))............ ( -25.10)
>DroYak_CAF1 3219 108 - 1
AGUUGGCUUCAUUCACUGCCCUCCAAUGCUCC------------UGCUCCAGGCCAAUUGGAAAACAAAUCUCCUUGCCUGCACGGCAAUAAAUUUGAGUGCCUCAAAAAUAACUAUCAA
(((((........((((....((((((...((------------((...))))...))))))...(((((....(((((.....)))))...))))))))).........)))))..... ( -24.03)
>consensus
AGUUGGCUUCAUUCACUGCCCUCCAAUGCUCCUGC______UCCUGCUCCAGGCCAAUUGGAAAACAAAUCUCCUGGCCUGCACGGCAAUAAAUUUGUUUGCCUUAAAA___________
....(((..((.....((((.......((................))..(((((((...(((.......)))..)))))))...)))).......))...)))................. (-17.41 = -17.61 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:40:41 2006