Locus 5758

Sequence ID 2L_DroMel_CAF1
Location 16,382,970 – 16,383,107
Length 137
Max. P 0.890101
window9121 window9122

overview

Window 1

Location 16,382,970 – 16,383,076
Length 106
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 93.19
Mean single sequence MFE -31.12
Consensus MFE -27.50
Energy contribution -27.70
Covariance contribution 0.20
Combinations/Pair 1.07
Mean z-score -1.67
Structure conservation index 0.88
SVM decision value 0.96
SVM RNA-class probability 0.890101
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16382970 106 - 22407834
-------------AGAUAAAGGCGAACAAGUUGUGCGGCAUGUGGCCGUCGCAAGACGGUUUGCAUUU-UUGAUUAAUAUCCAUUUCGCUGCUAUCGACGAUGCAUCAAUCAAAGUUUUC
-------------.....(((((......((((.((((((((..((((((....))))).)..)))..-..(((....)))......)))))...))))(((......)))...))))). ( -31.50)
>DroSec_CAF1 6527 106 - 1
-------------AGAUAAAGGCGAACAAGUUGUGCGGCAUGUGGCCGUCGCAAGACGGUUUGCAUUU-UUGAUUAAUAUCCAUUUCGCUGCUAUCGACGAUGCAUCAAUCAAAGUUUUC
-------------.....(((((......((((.((((((((..((((((....))))).)..)))..-..(((....)))......)))))...))))(((......)))...))))). ( -31.50)
>DroSim_CAF1 4642 106 - 1
-------------AGAUAAAGGCGAACAAGUUGUGCGGCAUGUGGCCGUCGCAAGACGGUUUGCAUUU-UUGAUUAAUAUCCAUUUCGCUGCUAUCGACGAUGCAUCAAUCAAAGUUUUC
-------------.....(((((......((((.((((((((..((((((....))))).)..)))..-..(((....)))......)))))...))))(((......)))...))))). ( -31.50)
>DroEre_CAF1 4867 106 - 1
-------------AGAUAAAGGCGAACAAGUUGUGCGGCAUGUGGCCGUCGCAAGACAGUUUGCAUUU-UUGAUUAAUUUCCAUUUCGCUGCUAUCGACGAUGCAUCAAUCAAAGUUUUC
-------------.((((..((((((((((..(((((((.....)))(((....))).....)))).)-)))............))))))..))))...(((......)))......... ( -27.80)
>DroYak_CAF1 7876 106 - 1
-------------AGAUAAAGGCGAACAAGUUGUGCGGCAUGUGGCCGUCGCAAGACAGUUUGCAUUU-UUGAUUAAUUUCCAUUUCGAUGCUAUCGACGAUGCAUCAAUCAAAGUUUUC
-------------........((((((...(((((((((.....)))).)))))....))))))..((-((((((............(((((.(((...))))))))))))))))..... ( -27.60)
>DroAna_CAF1 2642 120 - 1
UGGCACUGCGGGGAGAUAAAGUCGAACAAGUUGUGCGGCAUGUGGCUGUCGCAAGACAGUUUGCAUUUUUUGAUUAAUUUUCAUUUCGCCGCUAUCGACGAUGCAUCAAUCAAAGUUUUC
....(((((((.((((((((((..(.((((..((((((......((((((....))))))))))))..)))).)..))))).))))).)))).......(((......)))..))).... ( -36.80)
>consensus
_____________AGAUAAAGGCGAACAAGUUGUGCGGCAUGUGGCCGUCGCAAGACAGUUUGCAUUU_UUGAUUAAUAUCCAUUUCGCUGCUAUCGACGAUGCAUCAAUCAAAGUUUUC
.......................((((..((((.((((((((..((((((....))))).)..))).....((............)))))))...))))(((......)))...)))).. (-27.50 = -27.70 +   0.20)

alignment

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secondary structure

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dotplot

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Window 2

Location 16,383,010 – 16,383,107
Length 97
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 89.68
Mean single sequence MFE -26.37
Consensus MFE -21.11
Energy contribution -21.33
Covariance contribution 0.22
Combinations/Pair 1.11
Mean z-score -2.03
Structure conservation index 0.80
SVM decision value -0.05
SVM RNA-class probability 0.506200
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16383010 97 - 22407834
AAUAAAAAUUUAUUAGCAGGCAGGGGAGACA----------------------AGAUAAAGGCGAACAAGUUGUGCGGCAUGUGGCCGUCGCAAGACGGUUUGCAUUU-UUGAUUAAUAU
..........((((((((((....(....).----------------------........((((((...(((((((((.....)))).)))))....))))))...)-))).)))))). ( -24.50)
>DroSec_CAF1 6567 97 - 1
AAUAAAAAUUUAUUAGCAGGCAGGGGAGACA----------------------AGAUAAAGGCGAACAAGUUGUGCGGCAUGUGGCCGUCGCAAGACGGUUUGCAUUU-UUGAUUAAUAU
..........((((((((((....(....).----------------------........((((((...(((((((((.....)))).)))))....))))))...)-))).)))))). ( -24.50)
>DroSim_CAF1 4682 97 - 1
AAUAAAAAUUUAUUAGCAGGCAGGGGAGACA----------------------AGAUAAAGGCGAACAAGUUGUGCGGCAUGUGGCCGUCGCAAGACGGUUUGCAUUU-UUGAUUAAUAU
..........((((((((((....(....).----------------------........((((((...(((((((((.....)))).)))))....))))))...)-))).)))))). ( -24.50)
>DroEre_CAF1 4907 96 - 1
AAUAAAAAUUUAUUAGCAGG-AGGGGAGACA----------------------AGAUAAAGGCGAACAAGUUGUGCGGCAUGUGGCCGUCGCAAGACAGUUUGCAUUU-UUGAUUAAUUU
...........(((((((((-((.(....).----------------------........((((((...(((((((((.....)))).)))))....)))))).)))-))).))))).. ( -23.90)
>DroYak_CAF1 7916 97 - 1
AAUAAAAAUUUAUUAGCAGGCAGGGGAGACA----------------------AGAUAAAGGCGAACAAGUUGUGCGGCAUGUGGCCGUCGCAAGACAGUUUGCAUUU-UUGAUUAAUUU
...............((((((...(....).----------------------.......(((..(((.(((....))).))).)))(((....))).))))))....-........... ( -24.40)
>DroAna_CAF1 2682 120 - 1
AAUAAAAAUUUAUUAGCAAGAAAGGGAGACAGGGCACGGGUGGCACUGCGGGGAGAUAAAGUCGAACAAGUUGUGCGGCAUGUGGCUGUCGCAAGACAGUUUGCAUUUUUUGAUUAAUUU
...........((((((((((((.(.((((.((.((((.((.((((.((..(..(((...)))...)..)).)))).)).)))).))(((....))).)))).).))))))).))))).. ( -36.40)
>consensus
AAUAAAAAUUUAUUAGCAGGCAGGGGAGACA______________________AGAUAAAGGCGAACAAGUUGUGCGGCAUGUGGCCGUCGCAAGACAGUUUGCAUUU_UUGAUUAAUAU
...............((((((...(....)..............................(((..(((.(((....))).))).)))(((....))).))))))................ (-21.11 = -21.33 +   0.22)

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 11:52:00 2006