Locus 7724

Sequence ID 3L_DroMel_CAF1
Location 20,618,248 – 20,618,365
Length 117
Max. P 0.764597
window12572 window12573

overview

Window 2

Location 20,618,248 – 20,618,365
Length 117
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 82.75
Mean single sequence MFE -33.94
Consensus MFE -21.43
Energy contribution -23.20
Covariance contribution 1.77
Combinations/Pair 1.14
Mean z-score -2.08
Structure conservation index 0.63
SVM decision value 0.51
SVM RNA-class probability 0.764597
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20618248 117 + 23771897
---UUUGCGUGAAUUAUGCAAAUGAGUUUGGCCCUGGCUAGUUGAAUUACGCUCAAUGGCGAUUGCAAUUGCAAGAGGUUUAGCAGCGCAAACGGAGACGACCAAAGCCAAAGCCAAACA
---((((((((...))))))))...(((((((..(((((.((((((((.((((....)))).((((....))))..))))))))........((....)).....)))))..))))))). ( -41.60)
>DroSec_CAF1 62987 117 + 1
---UUUGCGUGAAUUAUGCAAAUGAGUUCGGCCCUGGCCAGUUGAAUUACGCUCAAUGGCAAUUGCAAUUGCAAGAGGUUUAGCAGCGCAGACGGAGACGACCAAAGCCAAAGCCAAACA
---((((((((...))))))))...(((.(((..((((..((((....((.(((....(((((....)))))..)))))....)))).....((....))......))))..))).))). ( -35.20)
>DroAna_CAF1 84677 102 + 1
GACUUUGCGUGAAUUAUGCAAAUGAGUCUUACCCUCGCCAGUGGAAUUACGCUCAAUGGCAAUUGCAAUUGCAAAAGGUUCAACCGCAGAGAC------------------AGCCAAACA
..(((((((((((((.(((((..(((.......)))(((((((......)))....))))........)))))...))))))..)))))))..------------------......... ( -26.80)
>DroSim_CAF1 57892 117 + 1
---UUUGCGUGAAUUAUGCAAAUGAGUUCGGCCCUGGCCAGUUGAAUUACGCUCAAUGGCAAUUGCAAUUGCAAGAGGUUUAGCAGCGCAGACGGAGACGAGCAAAGCCAAAGCCAAACA
---((((((((...))))))))...(((.(((..((((..((((....((.(((....(((((....)))))..)))))....))))((...((....)).))...))))..))).))). ( -36.30)
>DroEre_CAF1 55572 111 + 1
---UUUGCGUGAAUUAUGCAAAUGAGUUUAGCCCUGGCCAGUAGAAUUACGCUCAAUGGCAAUCGCAAUUGCCAAAGGUUUGGCAUCAUAGACAGAGACGCGCAAA------GCCAGACA
---((((((((..((((....))))((((((((..((((.(((....)))......(((((((....)))))))..)))).)))....))))).....))))))))------........ ( -29.80)
>consensus
___UUUGCGUGAAUUAUGCAAAUGAGUUUGGCCCUGGCCAGUUGAAUUACGCUCAAUGGCAAUUGCAAUUGCAAGAGGUUUAGCAGCGCAGACGGAGACGACCAAAGCCAAAGCCAAACA
...((((((((...))))))))...(((((((.(((((..((((((((..(((....)))..((((....))))..)))))))).)).))).((....))............))))))). (-21.43 = -23.20 +   1.77)

alignment

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secondary structure

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dotplot

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Window 3

Location 20,618,248 – 20,618,365
Length 117
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 82.75
Mean single sequence MFE -33.30
Consensus MFE -19.58
Energy contribution -21.54
Covariance contribution 1.96
Combinations/Pair 1.14
Mean z-score -1.96
Structure conservation index 0.59
SVM decision value 0.10
SVM RNA-class probability 0.583489
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20618248 117 - 23771897
UGUUUGGCUUUGGCUUUGGUCGUCUCCGUUUGCGCUGCUAAACCUCUUGCAAUUGCAAUCGCCAUUGAGCGUAAUUCAACUAGCCAGGGCCAAACUCAUUUGCAUAAUUCACGCAAA---
.((((((((((((((((((.((.(((((.(((((.(((..........)))..))))).)).....)))))....))))..))))))))))))))...(((((.........)))))--- ( -37.40)
>DroSec_CAF1 62987 117 - 1
UGUUUGGCUUUGGCUUUGGUCGUCUCCGUCUGCGCUGCUAAACCUCUUGCAAUUGCAAUUGCCAUUGAGCGUAAUUCAACUGGCCAGGGCCGAACUCAUUUGCAUAAUUCACGCAAA---
.((((((((((((((..((......))...((((((.(.....(..((((....))))..).....)))))))........))))))))))))))...(((((.........)))))--- ( -36.60)
>DroAna_CAF1 84677 102 - 1
UGUUUGGCU------------------GUCUCUGCGGUUGAACCUUUUGCAAUUGCAAUUGCCAUUGAGCGUAAUUCCACUGGCGAGGGUAAGACUCAUUUGCAUAAUUCACGCAAAGUC
.(((..(((------------------((....)))))..))).((((((...(((((((((((.((..........)).))))))(((.....)))..)))))........)))))).. ( -26.20)
>DroSim_CAF1 57892 117 - 1
UGUUUGGCUUUGGCUUUGCUCGUCUCCGUCUGCGCUGCUAAACCUCUUGCAAUUGCAAUUGCCAUUGAGCGUAAUUCAACUGGCCAGGGCCGAACUCAUUUGCAUAAUUCACGCAAA---
.((((((((((((((.((((((....((..((((.(((..........)))..))))..))....))))))..........))))))))))))))...(((((.........)))))--- ( -36.90)
>DroEre_CAF1 55572 111 - 1
UGUCUGGC------UUUGCGCGUCUCUGUCUAUGAUGCCAAACCUUUGGCAAUUGCGAUUGCCAUUGAGCGUAAUUCUACUGGCCAGGGCUAAACUCAUUUGCAUAAUUCACGCAAA---
((((.((.------((((.(((((.........)))))))))))...)))).(((((..(((...((((.(((....)))((((....))))..))))...))).......))))).--- ( -29.40)
>consensus
UGUUUGGCUUUGGCUUUGCUCGUCUCCGUCUGCGCUGCUAAACCUCUUGCAAUUGCAAUUGCCAUUGAGCGUAAUUCAACUGGCCAGGGCCAAACUCAUUUGCAUAAUUCACGCAAA___
.(((((((((((..................................((((....))))..(((((((((.....))))).)))))))))))))))...(((((.........)))))... (-19.58 = -21.54 +   1.96)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:55:09 2006