Locus 6598

Sequence ID 3R_DroMel_CAF1
Location 17,363,997 – 17,364,133
Length 136
Max. P 0.942799
window10743 window10744

overview

Window 3

Location 17,363,997 – 17,364,110
Length 113
Sequences 5
Columns 116
Reading direction reverse
Mean pairwise identity 86.14
Mean single sequence MFE -33.74
Consensus MFE -23.06
Energy contribution -23.86
Covariance contribution 0.80
Combinations/Pair 1.08
Mean z-score -2.28
Structure conservation index 0.68
SVM decision value 0.63
SVM RNA-class probability 0.806315
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17363997 113 - 27905053
UCAUUGCGUCAUUUGCCACGCCAUCACGCCGCAUCCUGGCAUAU---CCAGGCAUGUCCUGCCAUAUCAUGGCACAUCCUGGAACGCACUGGCGCUCCGUAAUAGGAGCCGUAAUU
..((((((......((((.((......((((.....))))...(---(((((.((((...(((((...)))))))))))))))..))..))))(((((......))))))))))). ( -43.10)
>DroSec_CAF1 12388 103 - 1
CCAUUGCGUCAUUUGCCACGCCAUCACGCCGCAUCGUGGCAUAU---CCUGCCAUGUCCUGCUAUA----------UCCUGGAAUGCACUGGCGCUCCGUAAUAGGAGCCGUAAUU
..((((((......((((.((......)).(((((((((((...---..)))))))(((.......----------....)))))))..))))(((((......))))))))))). ( -33.80)
>DroSim_CAF1 21798 103 - 1
CCAUUGCAUCAUUUGCCACGCCAUCACGCCGCAUCGUGGCAUAU---CCUGCCAUGUCCUGCUAUA----------UCCUGGAACGCACUGGCGCUCCGUAAUAGGAGCCGUAAUU
..(((((.......((((.((......)).((..(((((((...---..)))))))(((.......----------....)))..))..))))(((((......))))).))))). ( -31.40)
>DroEre_CAF1 15034 103 - 1
CCAUUGCGUCAUUUGCCACGCCAUCCCGCCGCAUCCUGGCAUGU---CCUGGCACAUCCUGCCACA----------UCCUGGAACGCUCCGGCGCUCCGUAAUAGGAGCCGUAAUU
..((((((......(((..((......)).((.(((.((.((((---...((((.....)))))))----------))).)))..))...)))(((((......))))))))))). ( -33.20)
>DroYak_CAF1 22822 106 - 1
CCAUAGCGCCAUUUGCCACGCCAUCCCGACGCAUCCUGCCAUGUCAUCCUGUCAUAUCCUGGCACA----------UCCCGGAACGCUCUGGCGCUCCGUAAUAGGAGCCGUAAUU
.....(((......((((.((..(((.(((((.....))...)))....(((((.....)))))..----------....)))..))..))))(((((......)))))))).... ( -27.20)
>consensus
CCAUUGCGUCAUUUGCCACGCCAUCACGCCGCAUCCUGGCAUAU___CCUGCCAUGUCCUGCCAUA__________UCCUGGAACGCACUGGCGCUCCGUAAUAGGAGCCGUAAUU
..((((((......((((.((......((((.....))))..........((((.....))))......................))..))))(((((......))))))))))). (-23.06 = -23.86 +   0.80)

alignment

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secondary structure

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dotplot

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Window 4

Location 17,364,033 – 17,364,133
Length 100
Sequences 5
Columns 103
Reading direction reverse
Mean pairwise identity 83.19
Mean single sequence MFE -27.52
Consensus MFE -18.84
Energy contribution -19.72
Covariance contribution 0.88
Combinations/Pair 1.16
Mean z-score -2.48
Structure conservation index 0.68
SVM decision value 1.33
SVM RNA-class probability 0.942799
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17364033 100 - 27905053
CCCGACUGUGUGGCAUAAUUGCGUCAUUGCGUCAUUUGCCACGCCAUCACGCCGCAUCCUGGCAUAU---CCAGGCAUGUCCUGCCAUAUCAUGGCACAUCCU
...((..((((((((.(((.((((....)))).)))))))))))..)).....(((((((((.....---))))).))))..((((((...))))))...... ( -34.60)
>DroSec_CAF1 12424 90 - 1
CCCGACUGUGUAGCAUAAUUGCGCCAUUGCGUCAUUUGCCACGCCAUCACGCCGCAUCGUGGCAUAU---CCUGCCAUGUCCUGCUAUA----------UCCU
...((..((((.(((.(((.((((....)))).)))))).))))..)).....(((.(((((((...---..)))))))...)))....----------.... ( -26.70)
>DroSim_CAF1 21834 90 - 1
CCCGACUGUGUGGCAUAAUUGCGCCAUUGCAUCAUUUGCCACGCCAUCACGCCGCAUCGUGGCAUAU---CCUGCCAUGUCCUGCUAUA----------UCCU
...((..((((((((....((((....)))).....))))))))..)).....(((.(((((((...---..)))))))...)))....----------.... ( -30.90)
>DroEre_CAF1 15070 90 - 1
GCCGACUGUGCGACAUAAUUGCGCCAUUGCGUCAUUUGCCACGCCAUCCCGCCGCAUCCUGGCAUGU---CCUGGCACAUCCUGCCACA----------UCCU
((((...(((((........(((..((.((((........)))).))..))))))))..))))....---..(((((.....)))))..----------.... ( -22.70)
>DroYak_CAF1 22858 93 - 1
GCCGAAUGUGUGACAUAAUUGCGCCAUAGCGCCAUUUGCCACGCCAUCCCGACGCAUCCUGCCAUGUCAUCCUGUCAUAUCCUGGCACA----------UCCC
((((...((((((((.....((((....))))..................(((((.....))...)))....))))))))..))))...----------.... ( -22.70)
>consensus
CCCGACUGUGUGGCAUAAUUGCGCCAUUGCGUCAUUUGCCACGCCAUCACGCCGCAUCCUGGCAUAU___CCUGCCAUGUCCUGCCAUA__________UCCU
...((..((((((((.(((.((((....)))).)))))))))))..))..((((.....))))..........((((.....))))................. (-18.84 = -19.72 +   0.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:25:32 2006