Locus 1677

Sequence ID X_DroMel_CAF1
Location 4,699,075 – 4,699,208
Length 133
Max. P 0.925769
window2758 window2759

overview

Window 8

Location 4,699,075 – 4,699,178
Length 103
Sequences 4
Columns 103
Reading direction forward
Mean pairwise identity 94.50
Mean single sequence MFE -29.30
Consensus MFE -24.74
Energy contribution -25.55
Covariance contribution 0.81
Combinations/Pair 1.08
Mean z-score -2.54
Structure conservation index 0.84
SVM decision value 1.17
SVM RNA-class probability 0.925769
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4699075 103 + 22224390
AGCAUCUAUCAACGCGAAUGGCGAAAGCCCCACGGAUUCCAGUGCGGAUAUAUAUCAUAUUAGCCCAUCUGCGCCACUGCAAAUCCCAUUGGAAUCGAAAUAU
........((....((...(((....)))...))((((((((((.((((.............((......))((....))..))))))))))))))))..... ( -30.10)
>DroSec_CAF1 52272 103 + 1
AGCAUCUAUCAACGCGAAUGGCGAAAGCCCCACGGAUUCCAGUGCGGAUAUAUAUCAUAUUAGCCCAUCUGCGCCACUGCAAAUCCCAUUGGAAUCGAAAUAU
........((....((...(((....)))...))((((((((((.((((.............((......))((....))..))))))))))))))))..... ( -30.10)
>DroEre_CAF1 53593 103 + 1
AGCAUCUAUCAACGCGUGAGGCGAAAGCCCCACGGAUUGCAAUGCGGAUAUAUAUCAUAUUAGCCCAUCUGCGCCACUGCAAAUCCCAUUGGAAUCGAAAUAU
........((....((((.(((....))).))))((((.(((((.((((.............((......))((....))..))))))))).))))))..... ( -31.40)
>DroYak_CAF1 50372 103 + 1
AGCAUCUAUCGACGCGGAUGUUGAAAGCCCCACGGAUUGCAAUGGGGAUAUAUAUCAUAUUAGCCCAUCUGCGCUACUGCAAAUCCCAUUGGAAUCGAAAUAU
(((((((........)))))))............((((.((((((((...............((......))((....))...)))))))).))))....... ( -25.60)
>consensus
AGCAUCUAUCAACGCGAAUGGCGAAAGCCCCACGGAUUCCAAUGCGGAUAUAUAUCAUAUUAGCCCAUCUGCGCCACUGCAAAUCCCAUUGGAAUCGAAAUAU
........((....((...(((....)))...))((((((((((.((((.............((......))((....))..))))))))))))))))..... (-24.74 = -25.55 +   0.81)

alignment

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secondary structure

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dotplot

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Window 9

Location 4,699,114 – 4,699,208
Length 94
Sequences 4
Columns 100
Reading direction forward
Mean pairwise identity 89.21
Mean single sequence MFE -17.10
Consensus MFE -13.45
Energy contribution -13.70
Covariance contribution 0.25
Combinations/Pair 1.09
Mean z-score -1.56
Structure conservation index 0.79
SVM decision value 0.20
SVM RNA-class probability 0.631469
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4699114 94 + 22224390
CAGUGCGGAUAUAUAUCAUAUUAGCCCAUCUGCGCCACUGCAAAUCCCAUUGGAAUCGAAAUAUGUAUGUA------CAUAUAUUUAGCUUUAUACAUAU
(((((.((((.............((......))((....))..)))))))))........(((((((((..------..((....))....))))))))) ( -16.90)
>DroSec_CAF1 52311 94 + 1
CAGUGCGGAUAUAUAUCAUAUUAGCCCAUCUGCGCCACUGCAAAUCCCAUUGGAAUCGAAAUAUGUAUGCA------CAUAUAUUCAGCUUUAUACAUAU
..((((((((...((......))....))))))))....((...(((....)))...(((((((((....)------))))).))).))........... ( -17.60)
>DroEre_CAF1 53632 90 + 1
CAAUGCGGAUAUAUAUCAUAUUAGCCCAUCUGCGCCACUGCAAAUCCCAUUGGAAUCGAAAUAUAUACAUAU----------AUUCAGCUUUAUACAUAU
(((((.((((.............((......))((....))..)))))))))(((.(..((((((....)))----------)))..).)))........ ( -12.50)
>DroYak_CAF1 50411 100 + 1
CAAUGGGGAUAUAUAUCAUAUUAGCCCAUCUGCGCUACUGCAAAUCCCAUUGGAAUCGAAAUAUGUACAUAUAUUCGUAUAUAUUCAGCUUUAUACAUAU
((((((((...............((......))((....))...))))))))(((.(..(((((((((........)))))))))..).)))........ ( -21.40)
>consensus
CAAUGCGGAUAUAUAUCAUAUUAGCCCAUCUGCGCCACUGCAAAUCCCAUUGGAAUCGAAAUAUGUACAUA______CAUAUAUUCAGCUUUAUACAUAU
(((((.((((.............((......))((....))..)))))))))........(((((((((......................))))))))) (-13.45 = -13.70 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:16:27 2006