Locus 7839

Sequence ID 3R_DroMel_CAF1
Location 20,991,674 – 20,991,766
Length 92
Max. P 0.809139
window12637 window12638

overview

Window 7

Location 20,991,674 – 20,991,766
Length 92
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 81.32
Mean single sequence MFE -26.90
Consensus MFE -18.08
Energy contribution -18.22
Covariance contribution 0.14
Combinations/Pair 1.29
Mean z-score -1.31
Structure conservation index 0.67
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20991674 92 + 27905053
CACUUGAUGGA------AAUGGCUUUGGCCAUAACAAUCAGCCACGGCAGGUGUACUUUCUACCGCUUUUCAGCGGUUUAUCACGGCCGGAUCAUAA----------------------G
...(((((...------.(((((....)))))....)))))...((((..(((........((((((....))))))....))).))))........----------------------. ( -28.10)
>DroSec_CAF1 32254 91 + 1
CACUUGAUGGA------AAUGGCUCUGGCCAUAACAAUCAGCCACGGCAGGUGUACUUUCU-CCGCUUUUCAGCGGUUUAUCACGGCCGUAUCAUAA----------------------G
...(((((...------.(((((....)))))....)))))..(((((..(((........-(((((....))))).....))).))))).......----------------------. ( -27.92)
>DroSim_CAF1 27664 91 + 1
CACUUGAUGGA------AAUGGCUACGGCCAUAACAAUCAGCCACGGCAGGUGUACUUUCU-CCGCUUUUCAGCGGUUUAUCACGGCCGUAUCAUAA----------------------G
...(((((...------.(((((....)))))....)))))..(((((..(((........-(((((....))))).....))).))))).......----------------------. ( -30.42)
>DroEre_CAF1 34237 91 + 1
CACUUGAUGGA------AAUGGCUCCGGCCAUAACAAUCAGCAACGGCAGGUGUACUUACU-CCGCUUUUCAGCGGUUUAUCACGGCCGGAUCAUAC----------------------G
...........------.((((.(((((((..........((....))..(((....((..-(((((....)))))..)).))))))))))))))..----------------------. ( -29.00)
>DroYak_CAF1 33822 119 + 1
CACUUGAUGGAAAUGGAAAUGGCUACGGCCAUAACAAUCAGCAACGCCAGGUGUACUUUCU-CCGCUUUUCAGCGGUUUAUCACGACCGGAUUAUACUCACUACUCACUACUCACCACUG
((((((.((....(((..(((((....))))).....)))....)).)))))).......(-(((((....)))((((......)))))))............................. ( -25.10)
>DroAna_CAF1 32067 87 + 1
CACUUGAUGGA------AAUGGCUUUUCCCAUAACAAUCAGCCACGGCAGGUGUGU----A-CGGCUUUUCAGCGGUUUAUCGCCGCAGGAUCAUAG----------------------C
..((((.....------..(((((...............)))))((((.((((...----(-(.(((....))).)).)))))))))))).......----------------------. ( -20.86)
>consensus
CACUUGAUGGA______AAUGGCUACGGCCAUAACAAUCAGCCACGGCAGGUGUACUUUCU_CCGCUUUUCAGCGGUUUAUCACGGCCGGAUCAUAA______________________G
..................((((.(((((((..........((....))..(((.........(((((....))))).....))))))))))))))......................... (-18.08 = -18.22 +   0.14)

alignment

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secondary structure

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dotplot

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Window 8

Location 20,991,674 – 20,991,766
Length 92
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 81.32
Mean single sequence MFE -31.33
Consensus MFE -21.61
Energy contribution -22.03
Covariance contribution 0.42
Combinations/Pair 1.11
Mean z-score -2.00
Structure conservation index 0.69
SVM decision value 0.64
SVM RNA-class probability 0.809139
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20991674 92 - 27905053
C----------------------UUAUGAUCCGGCCGUGAUAAACCGCUGAAAAGCGGUAGAAAGUACACCUGCCGUGGCUGAUUGUUAUGGCCAAAGCCAUU------UCCAUCAAGUG
.----------------------.........(((((((((((((((((....))))))....(((.(((.....))))))..))))))))))).........------........... ( -30.00)
>DroSec_CAF1 32254 91 - 1
C----------------------UUAUGAUACGGCCGUGAUAAACCGCUGAAAAGCGG-AGAAAGUACACCUGCCGUGGCUGAUUGUUAUGGCCAGAGCCAUU------UCCAUCAAGUG
.----------------------......((((((.(((((...(((((....)))))-.....)).)))..))))))((((((.(..(((((....))))).------.).))).))). ( -30.40)
>DroSim_CAF1 27664 91 - 1
C----------------------UUAUGAUACGGCCGUGAUAAACCGCUGAAAAGCGG-AGAAAGUACACCUGCCGUGGCUGAUUGUUAUGGCCGUAGCCAUU------UCCAUCAAGUG
.----------------------..(((.((((((((((((((.(((((....)))))-....(((.(((.....))))))..))))))))))))))..))).------........... ( -34.40)
>DroEre_CAF1 34237 91 - 1
C----------------------GUAUGAUCCGGCCGUGAUAAACCGCUGAAAAGCGG-AGUAAGUACACCUGCCGUUGCUGAUUGUUAUGGCCGGAGCCAUU------UCCAUCAAGUG
.----------------------..(((.((((((((((((((.(((((....)))))-((((((((....)))..)))))..))))))))))))))..))).------........... ( -36.10)
>DroYak_CAF1 33822 119 - 1
CAGUGGUGAGUAGUGAGUAGUGAGUAUAAUCCGGUCGUGAUAAACCGCUGAAAAGCGG-AGAAAGUACACCUGGCGUUGCUGAUUGUUAUGGCCGUAGCCAUUUCCAUUUCCAUCAAGUG
...(((((.(.((((.(.((((.((......((((((((((((.(((((....)))))-....((((.((.....))))))..))))))))))))..)))))).))))).)))))).... ( -34.50)
>DroAna_CAF1 32067 87 - 1
G----------------------CUAUGAUCCUGCGGCGAUAAACCGCUGAAAAGCCG-U----ACACACCUGCCGUGGCUGAUUGUUAUGGGAAAAGCCAUU------UCCAUCAAGUG
(----------------------(((..((((..(((((....((.(((....))).)-)----.......)))))..)..)))..).(((((((......))------)))))..))). ( -22.60)
>consensus
C______________________UUAUGAUCCGGCCGUGAUAAACCGCUGAAAAGCGG_AGAAAGUACACCUGCCGUGGCUGAUUGUUAUGGCCAAAGCCAUU______UCCAUCAAGUG
................................(((((((((((.(((((....)))))..............((....))...))))))))))).......................... (-21.61 = -22.03 +   0.42)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:56:07 2006