Locus 4731

Sequence ID 3R_DroMel_CAF1
Location 12,417,500 – 12,417,592
Length 92
Max. P 0.973484
window7769 window7770

overview

Window 9

Location 12,417,500 – 12,417,592
Length 92
Sequences 4
Columns 106
Reading direction forward
Mean pairwise identity 85.81
Mean single sequence MFE -30.16
Consensus MFE -23.31
Energy contribution -24.00
Covariance contribution 0.69
Combinations/Pair 1.09
Mean z-score -2.60
Structure conservation index 0.77
SVM decision value 1.71
SVM RNA-class probability 0.973484
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12417500 92 + 27905053
GGCACACACGGA------UGUGUGUGUGUGUGUUGC--CAGUGAUGAUGCAACGGCCAAUUGAAUAACAAGCGGCAAAUGCAGCAGAGA------GAGAAAAAUUG
((((((((((.(------(....)).)))))).)))--).....((.((((...(((..(((.....)))..)))...)))).))....------........... ( -27.50)
>DroSec_CAF1 16450 90 + 1
GGCACACACGGA------UGUGUGUGUGUGUUGCCA--CAGUGAUGAUGCAACGGCCAAUUGAAUAACAAGCGGCAAAUGCAGCAGAGA------GAGA--AAUUG
.(((((((((..------..))))))))).((((..--((....)).((((...(((..(((.....)))..)))...))))))))...------....--..... ( -26.50)
>DroEre_CAF1 16964 98 + 1
GGCACACACGCA------UGUGCGAGUGUGUGUUGCCGCAGUGAUGAUGCAACGGCAAAUUGAAUAACAAGCGGCAACUGCAGCAGAGAGAGAGAGAGA--AAUUG
.((((((.(((.------...))).))))))((((((((........(((....)))..(((.....))))))))))).....................--..... ( -30.50)
>DroYak_CAF1 17091 98 + 1
GGCACACACGUACGUGUGUGUGCGUGUGUGUGUUGCCGCAGUGAUGAUGCAACGGCCAAUUGAAUAACAAGCGGCAACUGCAGCAGAGA------GAGA--AAUUG
.(((((((((((((....))))))))))))).((((.(((((............(((..(((.....)))..))).))))).))))...------....--..... ( -36.12)
>consensus
GGCACACACGGA______UGUGCGUGUGUGUGUUGC__CAGUGAUGAUGCAACGGCCAAUUGAAUAACAAGCGGCAAAUGCAGCAGAGA______GAGA__AAUUG
.(((((((((((........))))))))))).............((.((((...(((..(((.....)))..)))...)))).))..................... (-23.31 = -24.00 +   0.69)

alignment

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secondary structure

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dotplot

Postscript

Window 0

Location 12,417,500 – 12,417,592
Length 92
Sequences 4
Columns 106
Reading direction reverse
Mean pairwise identity 85.81
Mean single sequence MFE -27.90
Consensus MFE -18.25
Energy contribution -19.00
Covariance contribution 0.75
Combinations/Pair 1.05
Mean z-score -3.80
Structure conservation index 0.65
SVM decision value 1.64
SVM RNA-class probability 0.969268
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12417500 92 - 27905053
CAAUUUUUCUC------UCUCUGCUGCAUUUGCCGCUUGUUAUUCAAUUGGCCGUUGCAUCAUCACUG--GCAACACACACACACACA------UCCGUGUGUGCC
...........------....((.((((...((((.(((.....))).))))...)))).))....((--....))..(((((((...------...))))))).. ( -23.50)
>DroSec_CAF1 16450 90 - 1
CAAUU--UCUC------UCUCUGCUGCAUUUGCCGCUUGUUAUUCAAUUGGCCGUUGCAUCAUCACUG--UGGCAACACACACACACA------UCCGUGUGUGCC
.....--....------....((.((((...((((.(((.....))).))))...)))).))....((--((....))))(((((((.------...))))))).. ( -27.60)
>DroEre_CAF1 16964 98 - 1
CAAUU--UCUCUCUCUCUCUCUGCUGCAGUUGCCGCUUGUUAUUCAAUUUGCCGUUGCAUCAUCACUGCGGCAACACACACUCGCACA------UGCGUGUGUGCC
.....--..............((((((((((((.((..(((....)))..))....))).....)))))))))...(((((.(((...------.))).))))).. ( -28.30)
>DroYak_CAF1 17091 98 - 1
CAAUU--UCUC------UCUCUGCUGCAGUUGCCGCUUGUUAUUCAAUUGGCCGUUGCAUCAUCACUGCGGCAACACACACACGCACACACACGUACGUGUGUGCC
.....--....------....(((((((((.((((.(((.....))).)))).(......)...)))))))))..........((((((((......)))))))). ( -32.20)
>consensus
CAAUU__UCUC______UCUCUGCUGCAGUUGCCGCUUGUUAUUCAAUUGGCCGUUGCAUCAUCACUG__GCAACACACACACACACA______UCCGUGUGUGCC
.....................((.((((((.((((.(((.....))).)))).)))))).))..................(((((((..........))))))).. (-18.25 = -19.00 +   0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:37:36 2006