Locus 4564

Sequence ID 2L_DroMel_CAF1
Location 13,089,298 – 13,089,392
Length 94
Max. P 0.981694
window7189 window7190

overview

Window 9

Location 13,089,298 – 13,089,392
Length 94
Sequences 6
Columns 96
Reading direction forward
Mean pairwise identity 74.70
Mean single sequence MFE -24.82
Consensus MFE -21.16
Energy contribution -21.05
Covariance contribution -0.11
Combinations/Pair 1.11
Mean z-score -2.99
Structure conservation index 0.85
SVM decision value 1.89
SVM RNA-class probability 0.981694
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13089298 94 + 22407834
CAAGCCAA--CUCUCCCCGAUCGAAUUGCCAGUGCCAUCGCUGCGGAUGCGUAAUCGAAUCAUCGAUAUUGCGCAUACGCAAUGUAAUCCACUUCC
........--........(((...((((((((((....))))).(.((((((((((((....)))))..))))))).))))))...)))....... ( -22.60)
>DroPse_CAF1 91626 81 + 1
CAGCCAACAU---------------GUUUCAGUGUCAGCGCUGCGUAUGCGUAGUCGAACGUCUCAUAUUGCGCAUACGCAAUGUAAUCCACAAAC
..((..((((---------------......))))..))..((((((((((((((.((.....))..))))))))))))))............... ( -25.50)
>DroSec_CAF1 70435 94 + 1
CAAGCCAA--CUCUACACGAUCGAUUUGCCAGUGCCAUCACUGCGUAUGCGUAAUCGAAUCAUCCAUAUUGCGCAUACGCAAUGAAAUCCACUCGC
........--.................((.((((...(((.((((((((((((((.((....))...)))))))))))))).)))....)))).)) ( -27.70)
>DroSim_CAF1 68122 94 + 1
UAAGCCAA--CUCUCCCCGAUCGAAUUGCCAGUGCCACCACUGCGUAUGCGUAAUCGAAUCAUCCAUAUUGCGCAUACGCAAUGCAAUCCACUUCC
........--............(.(((((.((((....))))(((((((((((((.((....))...)))))))))))))...))))).)...... ( -25.80)
>DroYak_CAF1 71095 96 + 1
CAAUCCACAUAUUUCCCCCUUCGAAUUGCCAGUGACAUCGCUGCGGAUGCGUAAUCGAAUCACCCAUAUUGCGCAUACGCAAUGCAAUCCACUCGC
......................(.(((((.((((....))))(((.(((((((((............))))))))).)))...))))).)...... ( -21.80)
>DroPer_CAF1 88328 81 + 1
CAGCCAACAU---------------GUUUCAGUGUCAGCGCUGCGUAUGCGUAGUCGAACGUCUCAUAUUGCGCAUACGCAAUGUAAUCCACAAAC
..((..((((---------------......))))..))..((((((((((((((.((.....))..))))))))))))))............... ( -25.50)
>consensus
CAAGCCAA__CUCUCCCCGAUCGAAUUGCCAGUGCCAUCGCUGCGUAUGCGUAAUCGAAUCACCCAUAUUGCGCAUACGCAAUGUAAUCCACUAAC
...............................(((....((.((((((((((((((............)))))))))))))).)).....))).... (-21.16 = -21.05 +  -0.11)

alignment

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secondary structure

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dotplot

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Window 0

Location 13,089,298 – 13,089,392
Length 94
Sequences 6
Columns 96
Reading direction reverse
Mean pairwise identity 74.70
Mean single sequence MFE -28.22
Consensus MFE -17.43
Energy contribution -18.57
Covariance contribution 1.14
Combinations/Pair 1.12
Mean z-score -1.54
Structure conservation index 0.62
SVM decision value 0.72
SVM RNA-class probability 0.832407
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13089298 94 - 22407834
GGAAGUGGAUUACAUUGCGUAUGCGCAAUAUCGAUGAUUCGAUUACGCAUCCGCAGCGAUGGCACUGGCAAUUCGAUCGGGGAGAG--UUGGCUUG
..((((.((((...(((((.(((((....(((((....)))))..))))).)))))(((..((....))...))).........))--)).)))). ( -27.40)
>DroPse_CAF1 91626 81 - 1
GUUUGUGGAUUACAUUGCGUAUGCGCAAUAUGAGACGUUCGACUACGCAUACGCAGCGCUGACACUGAAAC---------------AUGUUGGCUG
..............(((((((((((.....((((...))))....))))))))))).((..(((.......---------------.)))..)).. ( -23.10)
>DroSec_CAF1 70435 94 - 1
GCGAGUGGAUUUCAUUGCGUAUGCGCAAUAUGGAUGAUUCGAUUACGCAUACGCAGUGAUGGCACUGGCAAAUCGAUCGUGUAGAG--UUGGCUUG
((.((((....((((((((((((((....((.((....)).))..))))))))))))))...)))).))((..(((((.....)).--)))..)). ( -34.90)
>DroSim_CAF1 68122 94 - 1
GGAAGUGGAUUGCAUUGCGUAUGCGCAAUAUGGAUGAUUCGAUUACGCAUACGCAGUGGUGGCACUGGCAAUUCGAUCGGGGAGAG--UUGGCUUA
...((((.....(((((((((((((....((.((....)).))..)))))))))))))....))))(.((((((.........)))--))).)... ( -32.00)
>DroYak_CAF1 71095 96 - 1
GCGAGUGGAUUGCAUUGCGUAUGCGCAAUAUGGGUGAUUCGAUUACGCAUCCGCAGCGAUGUCACUGGCAAUUCGAAGGGGGAAAUAUGUGGAUUG
((.((((((((((((((((....))))))..(((((...........)))))...))))).))))).))..(((....)))............... ( -28.80)
>DroPer_CAF1 88328 81 - 1
GUUUGUGGAUUACAUUGCGUAUGCGCAAUAUGAGACGUUCGACUACGCAUACGCAGCGCUGACACUGAAAC---------------AUGUUGGCUG
..............(((((((((((.....((((...))))....))))))))))).((..(((.......---------------.)))..)).. ( -23.10)
>consensus
GCAAGUGGAUUACAUUGCGUAUGCGCAAUAUGGAUGAUUCGAUUACGCAUACGCAGCGAUGGCACUGGCAAUUCGAUCGGGGAGAG__GUGGCUUG
((.((((.....(.(((((((((((.(((.((((...))))))).))))))))))).)....)))).))........................... (-17.43 = -18.57 +   1.14)

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 11:21:07 2006