Locus 3149

Sequence ID 2L_DroMel_CAF1
Location 8,984,884 – 8,984,982
Length 98
Max. P 0.995601
window5002 window5003

overview

Window 2

Location 8,984,884 – 8,984,982
Length 98
Sequences 4
Columns 116
Reading direction forward
Mean pairwise identity 84.15
Mean single sequence MFE -41.58
Consensus MFE -31.48
Energy contribution -32.10
Covariance contribution 0.62
Combinations/Pair 1.06
Mean z-score -2.17
Structure conservation index 0.76
SVM decision value 1.17
SVM RNA-class probability 0.925843
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8984884 98 + 22407834
GUU-----UUGCUGUUUUCCUGGAGUUAC-------CGUAUUACGAUAUAAUAUCGUAAGCGCAGACGCGGCGGCGACUGCGCAGCCGACGG------UGACGUCGACGCAGGCAG
...-----...((((((.(.(.(((((((-------(((.((((((((...))))))))((((((.(((....))).)))))).....))))------)))).)).).).)))))) ( -40.40)
>DroSec_CAF1 29003 101 + 1
GUUUU--UUUGCUGCUUAGCUGGAGUCAC-------CGUAUUACGAUAUAAUAUCGUAAGCGCAGACGCGGCGGCGACUGCGCUGGCGACGG------CGACGUCGACGCAGGCAG
.....--....((((((.(((.(((((.(-------(((..(((((((...)))))))(((((((.(((....))).)))))))....))))------.))).)).).)))))))) ( -43.10)
>DroSim_CAF1 22416 103 + 1
GUUUUUUUUUGCUGCUUAGCUGGAGUCAC-------CGUAUUACGAUAUAAUAUCGUAAGCGCAGACGCGGCGCCGACUGCGCAGCCGACGG------CGACGUCGACGCAGGCAG
...........((((((.(((.(((((.(-------(((.((((((((...))))))))((((((...((....)).)))))).....))))------.))).)).).)))))))) ( -40.50)
>DroYak_CAF1 47376 107 + 1
AUUU---UGUGCUGCUUUGCUGGAGUCACCGUAUAUCGUAUUACGAUAUAAUAUCGUAAGCGCAGACGCGG------CUGCGCAGCCGACGGCGGCGGCGACGUCGACGCAGGCAG
....---(((.((((.(((.((..(((.((((...(((..((((((((...))))))))((((((......------))))))...)))..)))).)))..)).))).))))))). ( -42.30)
>consensus
GUUU___UUUGCUGCUUAGCUGGAGUCAC_______CGUAUUACGAUAUAAUAUCGUAAGCGCAGACGCGGCGGCGACUGCGCAGCCGACGG______CGACGUCGACGCAGGCAG
...........((((....(((..(((.............((((((((...))))))))((((((.(((....))).))))))....((((..........))))))).))))))) (-31.48 = -32.10 +   0.62)

alignment

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secondary structure

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dotplot

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Window 3

Location 8,984,884 – 8,984,982
Length 98
Sequences 4
Columns 116
Reading direction reverse
Mean pairwise identity 84.15
Mean single sequence MFE -40.40
Consensus MFE -31.05
Energy contribution -32.05
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -3.20
Structure conservation index 0.77
SVM decision value 2.59
SVM RNA-class probability 0.995601
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8984884 98 - 22407834
CUGCCUGCGUCGACGUCA------CCGUCGGCUGCGCAGUCGCCGCCGCGUCUGCGCUUACGAUAUUAUAUCGUAAUACG-------GUAACUCCAGGAAAACAGCAA-----AAC
...((((.(((((((...------.))))))).((((((.(((....))).))))))((((((((...))))))))....-------.......))))..........-----... ( -36.80)
>DroSec_CAF1 29003 101 - 1
CUGCCUGCGUCGACGUCG------CCGUCGCCAGCGCAGUCGCCGCCGCGUCUGCGCUUACGAUAUUAUAUCGUAAUACG-------GUGACUCCAGCUAAGCAGCAAA--AAAAC
((((..((...((.((((------((((.....((((((.(((....))).))))))((((((((...)))))))).)))-------)))))))..))...))))....--..... ( -43.10)
>DroSim_CAF1 22416 103 - 1
CUGCCUGCGUCGACGUCG------CCGUCGGCUGCGCAGUCGGCGCCGCGUCUGCGCUUACGAUAUUAUAUCGUAAUACG-------GUGACUCCAGCUAAGCAGCAAAAAAAAAC
((((..((...((.((((------((((.....((((((.((......)).))))))((((((((...)))))))).)))-------)))))))..))...))))........... ( -40.20)
>DroYak_CAF1 47376 107 - 1
CUGCCUGCGUCGACGUCGCCGCCGCCGUCGGCUGCGCAG------CCGCGUCUGCGCUUACGAUAUUAUAUCGUAAUACGAUAUACGGUGACUCCAGCAAAGCAGCACA---AAAU
((((.(((...((.(((((((.....((((...((((((------......))))))...))))..(((((((.....))))))))))))))))..)))..))))....---.... ( -41.50)
>consensus
CUGCCUGCGUCGACGUCG______CCGUCGGCUGCGCAGUCGCCGCCGCGUCUGCGCUUACGAUAUUAUAUCGUAAUACG_______GUGACUCCAGCAAAGCAGCAAA___AAAC
.(((.((((((((((..........))))))).((((((.((......)).))))))((((((((...)))))))).........................))))))......... (-31.05 = -32.05 +   1.00)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:45:29 2006