Locus 3381

Sequence ID 3L_DroMel_CAF1
Location 9,889,068 – 9,889,165
Length 97
Max. P 0.845131
window5286 window5287

overview

Window 6

Location 9,889,068 – 9,889,165
Length 97
Sequences 4
Columns 102
Reading direction forward
Mean pairwise identity 82.58
Mean single sequence MFE -25.12
Consensus MFE -17.77
Energy contribution -17.40
Covariance contribution -0.37
Combinations/Pair 1.19
Mean z-score -1.59
Structure conservation index 0.71
SVM decision value 0.13
SVM RNA-class probability 0.597524
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9889068 97 + 23771897
UAGUAUAGUAUAUCCGCUGGCAGUCAGCGCCAUUUUGAUUGACACCCCUGCAGAUGUGCCGCCAUUUCCGGUGCAAGUAUAUGUACAUACA-AUAUUU----
..((((((((((((.((.((..(((((((......)).)))))...)).)).)))))))((((......))))........))))).....-......---- ( -24.00)
>DroSec_CAF1 49774 97 + 1
UAGUAUAGUAUAUCCGCUGGCAGUCGGCGCCAUUUUGAUUGACACCCCUGCAGAUGUGCCGCCAUUUCCGGUGCAAGUAUAUAUACAUACC-AUUUUU----
..(((((.(((((.((((((.(((.((((.(((((((...(......)..)))).))).))))))).))))))...)))))))))).....-......---- ( -25.30)
>DroSim_CAF1 51886 96 + 1
UAGUAUAGUAUAUCCGCUGGCAGUCGGCGCCAUUUUGAUUGACACCCCUGCAGUUGUGCCGCCAUUUCCGGUGCAAGUAUAUAUACAUACC-AUUUU-----
..(((((.(((((.((((((.(((.((((.(((...(((((.((....)))))))))).))))))).))))))...)))))))))).....-.....----- ( -26.40)
>DroEre_CAF1 52097 86 + 1
UA-----GUGUAUCCGCUGGCAGUCAGCGCCAUUUUGAUUGACACCUCUGCAGAUGUGUCGCCAUUUCCGGUGCA-----------GUACACACACAUAUAU
..-----(((((((((.((((((((((.......))))))(((((.((....)).)))))))))....)))....-----------)))))).......... ( -24.80)
>consensus
UAGUAUAGUAUAUCCGCUGGCAGUCAGCGCCAUUUUGAUUGACACCCCUGCAGAUGUGCCGCCAUUUCCGGUGCAAGUAUAUAUACAUACA_AUAUUU____
..((((((((((((.((.((..(((((((......)).)))))...)).)).)))))))((((......))))........)))))................ (-17.77 = -17.40 +  -0.37)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 9,889,068 – 9,889,165
Length 97
Sequences 4
Columns 102
Reading direction reverse
Mean pairwise identity 82.58
Mean single sequence MFE -27.55
Consensus MFE -20.11
Energy contribution -20.30
Covariance contribution 0.19
Combinations/Pair 1.04
Mean z-score -1.93
Structure conservation index 0.73
SVM decision value 0.77
SVM RNA-class probability 0.845131
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9889068 97 - 23771897
----AAAUAU-UGUAUGUACAUAUACUUGCACCGGAAAUGGCGGCACAUCUGCAGGGGUGUCAAUCAAAAUGGCGCUGACUGCCAGCGGAUAUACUAUACUA
----...(((-.((((((.((......))..(((....((((.(((....)))((.(((((((.......)))))))..)))))).))))))))).)))... ( -22.90)
>DroSec_CAF1 49774 97 - 1
----AAAAAU-GGUAUGUAUAUAUACUUGCACCGGAAAUGGCGGCACAUCUGCAGGGGUGUCAAUCAAAAUGGCGCCGACUGCCAGCGGAUAUACUAUACUA
----.....(-(((((((((((.....(((.(((....)))..)))...((((((.(((((((.......)))))))..))).)))...)))))).)))))) ( -28.30)
>DroSim_CAF1 51886 96 - 1
-----AAAAU-GGUAUGUAUAUAUACUUGCACCGGAAAUGGCGGCACAACUGCAGGGGUGUCAAUCAAAAUGGCGCCGACUGCCAGCGGAUAUACUAUACUA
-----....(-(((((((((((.....(((.(((....)))..)))(..((((((.(((((((.......)))))))..))).)))..))))))).)))))) ( -30.10)
>DroEre_CAF1 52097 86 - 1
AUAUAUGUGUGUGUAC-----------UGCACCGGAAAUGGCGACACAUCUGCAGAGGUGUCAAUCAAAAUGGCGCUGACUGCCAGCGGAUACAC-----UA
........((((((.(-----------(((...(((..((....))..)))((((.(((((((.......)))))))..))))..))))))))))-----.. ( -28.90)
>consensus
____AAAAAU_GGUAUGUAUAUAUACUUGCACCGGAAAUGGCGGCACAUCUGCAGGGGUGUCAAUCAAAAUGGCGCCGACUGCCAGCGGAUAUACUAUACUA
............(((.(((....))).))).(((....((((.(((....)))((.(((((((.......)))))))..)))))).)))............. (-20.11 = -20.30 +   0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:56:46 2006