Locus 258

Sequence ID 3R_DroMel_CAF1
Location 996,752 – 996,846
Length 94
Max. P 0.818503
window448 window449

overview

Window 8

Location 996,752 – 996,846
Length 94
Sequences 6
Columns 100
Reading direction forward
Mean pairwise identity 82.08
Mean single sequence MFE -36.22
Consensus MFE -25.61
Energy contribution -28.12
Covariance contribution 2.50
Combinations/Pair 1.12
Mean z-score -1.47
Structure conservation index 0.71
SVM decision value 0.08
SVM RNA-class probability 0.575916
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 996752 94 + 27905053
GUGGCUGUCCCGCAUUUUUCCUGCAGUUUUCCCUGUUGCUUCU------GCGGUGUCGCCACCGCCAGCUGGGGGAUAUUGACAGCGGCGGAUCGGGAGU
.......(((((.(((..(((((((((.((((((...(((...------((((((....)))))).))).)))))).)))).))).))..)))))))).. ( -39.30)
>DroPse_CAF1 52275 83 + 1
GCGGCUUGUCCGCAGUUUUCGCGCAGUUUUCCCUGUUGCUUUCCCACCAGCAGCAGCUGGAGCACCAGCUGGAGGAUAUUGAC-----------------
((((.....))))............(((((((..((((((........))))))((((((....)))))))))))))......----------------- ( -27.80)
>DroSec_CAF1 41590 94 + 1
GUGGUUGUCCCGCAUUUUUCCUGCAGUUUUCCCUGUUGCUUCU------GCGGUGUGGCCACCGCCAGCUGGGGGAUAUUGACAGCGGCGGAUCGGGAGU
.......(((((.(((..(((((((((.((((((...(((...------((((((....)))))).))).)))))).)))).))).))..)))))))).. ( -39.30)
>DroSim_CAF1 43980 94 + 1
GUGGCUGUCCCGCAUUUUUCCUGCAGUUUUCCCUGUUGCUUCU------GCGGUGUGGCCACCGCCAGCUGGGGGAUAUUGACAGCGGCGGAUCGGGAGU
.......(((((.(((..(((((((((.((((((...(((...------((((((....)))))).))).)))))).)))).))).))..)))))))).. ( -39.30)
>DroEre_CAF1 43856 93 + 1
GUG-CUGUCCCGCAUUUUUCCUGCAGCUUUCCCUGUUGCUUCU------GCGGUGUGGCCACUGCCAGCUGGGGGAUAUUGACAGCGGCGGAUCGGGAGU
...-...(((((.(((..((((((((..((((((...(((...------((((((....)))))).))).))))))..))).))).))..)))))))).. ( -35.80)
>DroYak_CAF1 46177 94 + 1
GUGGCUGUUCCGCAUUUUUCCUGCAGUUUUCCCCGUUGCUUCU------GCGGUGUGGCCACUGUCAGCUGGGGGAUAUUGACAGCGGCGGAUCGGAAGU
....(((.(((((.......(((((((.(((((((..(((...------((((((....)))))).)))))))))).)))).)))..))))).))).... ( -35.80)
>consensus
GUGGCUGUCCCGCAUUUUUCCUGCAGUUUUCCCUGUUGCUUCU______GCGGUGUGGCCACCGCCAGCUGGGGGAUAUUGACAGCGGCGGAUCGGGAGU
.......(((((.(((..(((((((((.((((((((((...........((((((....)))))))))).)))))).)))).))).))..)))))))).. (-25.61 = -28.12 +   2.50) 

alignment

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secondary structure

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dotplot

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Window 9

Location 996,752 – 996,846
Length 94
Sequences 6
Columns 100
Reading direction reverse
Mean pairwise identity 82.08
Mean single sequence MFE -33.00
Consensus MFE -21.69
Energy contribution -23.38
Covariance contribution 1.70
Combinations/Pair 1.21
Mean z-score -2.47
Structure conservation index 0.66
SVM decision value 0.67
SVM RNA-class probability 0.818503
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 996752 94 - 27905053
ACUCCCGAUCCGCCGCUGUCAAUAUCCCCCAGCUGGCGGUGGCGACACCGC------AGAAGCAACAGGGAAAACUGCAGGAAAAAUGCGGGACAGCCAC
..............((((((....((((...(((.((((((....))))))------...)))....))))...(((((.......)))))))))))... ( -39.30)
>DroPse_CAF1 52275 83 - 1
-----------------GUCAAUAUCCUCCAGCUGGUGCUCCAGCUGCUGCUGGUGGGAAAGCAACAGGGAAAACUGCGCGAAAACUGCGGACAAGCCGC
-----------------(((....((((.(((((((....))))))).((((........))))...))))......((((.....)))))))....... ( -26.20)
>DroSec_CAF1 41590 94 - 1
ACUCCCGAUCCGCCGCUGUCAAUAUCCCCCAGCUGGCGGUGGCCACACCGC------AGAAGCAACAGGGAAAACUGCAGGAAAAAUGCGGGACAACCAC
..(((((........((((.....((((...(((.((((((....))))))------...)))....)))).....))))........)))))....... ( -33.19)
>DroSim_CAF1 43980 94 - 1
ACUCCCGAUCCGCCGCUGUCAAUAUCCCCCAGCUGGCGGUGGCCACACCGC------AGAAGCAACAGGGAAAACUGCAGGAAAAAUGCGGGACAGCCAC
..............((((((....((((...(((.((((((....))))))------...)))....))))...(((((.......)))))))))))... ( -37.80)
>DroEre_CAF1 43856 93 - 1
ACUCCCGAUCCGCCGCUGUCAAUAUCCCCCAGCUGGCAGUGGCCACACCGC------AGAAGCAACAGGGAAAGCUGCAGGAAAAAUGCGGGACAG-CAC
..............((((((....((((...(((.((.(((....))).))------...)))....))))...(((((.......))))))))))-).. ( -32.30)
>DroYak_CAF1 46177 94 - 1
ACUUCCGAUCCGCCGCUGUCAAUAUCCCCCAGCUGACAGUGGCCACACCGC------AGAAGCAACGGGGAAAACUGCAGGAAAAAUGCGGAACAGCCAC
....(((....((((((((((............))))))))))......((------....))..)))((....(((((.......))))).....)).. ( -29.20)
>consensus
ACUCCCGAUCCGCCGCUGUCAAUAUCCCCCAGCUGGCGGUGGCCACACCGC______AGAAGCAACAGGGAAAACUGCAGGAAAAAUGCGGGACAGCCAC
..............((((((....((((...(((.((((((....)))))).........)))....))))...(((((.......)))))))))))... (-21.69 = -23.38 +   1.70) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:38:50 2006