Locus 2380

Sequence ID X_DroMel_CAF1
Location 6,350,020 – 6,350,161
Length 141
Max. P 0.815559
window3871 window3872

overview

Window 1

Location 6,350,020 – 6,350,121
Length 101
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 76.54
Mean single sequence MFE -24.07
Consensus MFE -15.49
Energy contribution -15.60
Covariance contribution 0.11
Combinations/Pair 1.07
Mean z-score -1.62
Structure conservation index 0.64
SVM decision value 0.43
SVM RNA-class probability 0.733420
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6350020 101 + 22224390
GUAAUACCUUCGCUGCCAGCAGCCCUUUUUCCACCA------CCCAAAGCAUGGA-------------AAACCCCAGCGCUCGGAAACCACCAAGCCAAAUGGCAGCCCCAUGCUAACCC
...........(((((((((......(((((((...------.........))))-------------))).....))(((.((......)).)))....)))))))............. ( -23.40)
>DroSec_CAF1 34052 100 + 1
GUAAUACCUCCGCUGCCAGCAGCCCUU-UUCCUCCA------CCCGGUGCCUGGA-------------AAACCGCAACGCUCGGAAACCACCAAGCCAAAUGGCAGCCCCAUGCUAUCCC
...........(((((((...((..((-((((..((------(...)))...)))-------------)))..))...(((.((......)).)))....)))))))............. ( -26.80)
>DroEre_CAF1 32069 119 + 1
GUAAUACUGCCGCUGGCAGCAGCCCUUUUCCGUACAGUAUACCCCAGACCCUGGAAGCACCCAUCUCAAAGCCCCAACCCUCGGAAACCACCAAGCCAAAUGGCAGCC-CAAGCUAUCCC
......(((((((((....))))...((((((....((.....((((...))))..((............))....))...))))))..............)))))..-........... ( -22.00)
>consensus
GUAAUACCUCCGCUGCCAGCAGCCCUUUUUCCUCCA______CCCAGAGCCUGGA_____________AAACCCCAACGCUCGGAAACCACCAAGCCAAAUGGCAGCCCCAUGCUAUCCC
...........(((((((...((....................(((.....)))............................((......))..))....)))))))............. (-15.49 = -15.60 +   0.11)

alignment

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secondary structure

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dotplot

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Window 2

Location 6,350,056 – 6,350,161
Length 105
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 80.87
Mean single sequence MFE -27.20
Consensus MFE -18.67
Energy contribution -19.23
Covariance contribution 0.56
Combinations/Pair 1.10
Mean z-score -1.96
Structure conservation index 0.69
SVM decision value 0.66
SVM RNA-class probability 0.815559
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6350056 105 + 22224390
--CCCAAAGCAUGGA-------------AAACCCCAGCGCUCGGAAACCACCAAGCCAAAUGGCAGCCCCAUGCUAACCCAAACACAAGAGGACUCCUUGACUUAACCCACCAGGUGCUG
--.(((.....))).-------------......((((((..((..........(((....)))(((.....)))..........((((.......))))..........))..)))))) ( -22.60)
>DroSec_CAF1 34087 105 + 1
--CCCGGUGCCUGGA-------------AAACCGCAACGCUCGGAAACCACCAAGCCAAAUGGCAGCCCCAUGCUAUCCCAAACCCGAGAGAACUCCUUGACAUAACCCACCAGGUGCUG
--..(((..(((((.-------------.........(.(((((..........(((....)))(((.....))).........))))).).......((........)))))))..))) ( -29.40)
>DroEre_CAF1 32109 119 + 1
ACCCCAGACCCUGGAAGCACCCAUCUCAAAGCCCCAACCCUCGGAAACCACCAAGCCAAAUGGCAGCC-CAAGCUAUCCCAAACCGGAGAGAACUCCUUGACAUAGCCCACCAGGUGCUG
....(((..(((((..((........................((......))..(((....))).)).-...(((((..(((...((((....)))))))..)))))...)))))..))) ( -29.60)
>consensus
__CCCAGAGCCUGGA_____________AAACCCCAACGCUCGGAAACCACCAAGCCAAAUGGCAGCCCCAUGCUAUCCCAAACCCGAGAGAACUCCUUGACAUAACCCACCAGGUGCUG
....(((..(((((............................((..........(((....)))(((.....)))...)).....((((.(....)))))..........)))))..))) (-18.67 = -19.23 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:33:07 2006