Locus 5693

Sequence ID 2L_DroMel_CAF1
Location 16,184,943 – 16,185,096
Length 153
Max. P 0.913720
window9021 window9022

overview

Window 1

Location 16,184,943 – 16,185,060
Length 117
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 91.98
Mean single sequence MFE -29.33
Consensus MFE -27.15
Energy contribution -26.52
Covariance contribution -0.64
Combinations/Pair 1.13
Mean z-score -1.43
Structure conservation index 0.93
SVM decision value 1.09
SVM RNA-class probability 0.913720
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16184943 117 + 22407834
---AAACGUGCAGUCUACGCACCCAAUGGUGCUCUUCCUGGCCACGAACGCAUGAUCCAAUCGACACCAGCUAGUCCCUACGAUCAGCGUCGUUUACCAACUUCAUCUGAUAUGAACGGU
---...(((.(((((...(((((....)))))......(((..((((.(((.(((((.....(((........))).....))))))))))))...))).........))).)).))).. ( -30.60)
>DroVir_CAF1 150978 117 + 1
---AUUUAUAUAGUCUACGCGCCCAAUGGUGCUAUUCCUGGCCACGAACGCAUGAUCCAAUCGACACCAGCUAGUCCCUACGAUCAGCGUCGUUUACCAACUUCAUCUGAAAUGAACGGC
---...............(((((....)))))........(((((((.(((.(((((.....(((........))).....))))))))))))........(((((.....))))).))) ( -28.00)
>DroGri_CAF1 113172 117 + 1
---AAUUAUAUAGUCUACGCACCCAAUGGUGCUAUUCCUGGCCACGAACGCAUGAUCCAAUCGACACCAGCUAGUCCUUACGAUCAGCGUCGUUUACCAACUUCAUCUGAAAUGAAUGGC
---...............(((((....)))))........(((((((.(((.(((((.....(((........))).....))))))))))))........(((((.....))))).))) ( -28.20)
>DroWil_CAF1 146839 117 + 1
---AUACCAUUAGUCUACGCACCCAAUGGUGCUAUUCCUGGCCACGAGCGCAUGAUCCAAUCGACACCAGCUAGUCCUUACGAUCAGCGUCGUUUACCAACUUCAUCUGAUAUGAACGGU
---..(((..........(((((....)))))......(((..((((.(((.(((((.....(((........))).....))))))))))))...)))..(((((.....))))).))) ( -29.20)
>DroMoj_CAF1 170141 120 + 1
UUCAUACAUAUAGUCUACGCGGCCAAUGGUGCUAUUCCUGGCCACGAACGCAUGAUCCAAUCGACACCAGCUAGUCCCUACGAUCAGCGUCGUUUACCAACUUCAUCUGAUAUGAAUGGC
.((((.(((((.........(((((..((.......)))))))((((.(((.(((((.....(((........))).....))))))))))))................))))).)))). ( -30.50)
>DroPer_CAF1 138893 117 + 1
---GCUCAUUUAGUCUACGCACCCAAUGGUGCUAUUCCUGGCCACGAGCGCAUGAUCCAAUCGACCCCAGCUAGUCCCUACGAUCAGCGUCGUUUACCAACUUCAUCUGAAAUGAACGGC
---(.((((((.......(((((....)))))......(((..((((.(((.(((((.....(((........))).....))))))))))))...)))..........)))))).)... ( -29.50)
>consensus
___AUACAUAUAGUCUACGCACCCAAUGGUGCUAUUCCUGGCCACGAACGCAUGAUCCAAUCGACACCAGCUAGUCCCUACGAUCAGCGUCGUUUACCAACUUCAUCUGAAAUGAACGGC
..........(((.....(((((....))))).....)))((((((.((((.(((((.....(((........))).....))))))))))))........(((((.....))))).))) (-27.15 = -26.52 +  -0.64)

alignment

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secondary structure

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dotplot

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Window 2

Location 16,184,980 – 16,185,096
Length 116
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 90.56
Mean single sequence MFE -31.60
Consensus MFE -30.85
Energy contribution -30.13
Covariance contribution -0.72
Combinations/Pair 1.12
Mean z-score -1.04
Structure conservation index 0.98
SVM decision value 0.57
SVM RNA-class probability 0.786401
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16184980 116 + 22407834
GCCACGAACGCAUGAUCCAAUCGACACCAGCUAGUCCCUACGAUCAGCGUCGUUUACCAACUUCAUCUGAUAUGAACGGUCUAGCCGAAUCAUUGAUUGGAGGGGUAAGUACUUAC----
...((((.(((.(((((.....(((........))).....))))))))))))(((((..(((((((....((((.(((.....)))..)))).)).))))).)))))........---- ( -30.70)
>DroGri_CAF1 113209 109 + 1
GCCACGAACGCAUGAUCCAAUCGACACCAGCUAGUCCUUACGAUCAGCGUCGUUUACCAACUUCAUCUGAAAUGAAUGGCCUAGCCGAAUCAUUGAUUGGAGGGGUGAG-----------
...((((.(((.(((((.....(((........))).....))))))))))))(((((..(((((.....(((((.((((...))))..)))))...))))).))))).----------- ( -31.10)
>DroEre_CAF1 105450 120 + 1
GCCACGAACGCAUGAUCCAAUCGACACCAGCUAGUCCCUACGAUCAGCGUCGUUUACCAACUUCAUCUGAUAUGAACGGCCUAGCCGAAUCAUUGAUUGGAGGGGUAAGUAAGAAAAAAG
...((((.(((.(((((.....(((........))).....))))))))))))((((..(((((.((..((((((.((((...))))..))))..))..)))))))..))))........ ( -32.00)
>DroWil_CAF1 146876 118 + 1
GCCACGAGCGCAUGAUCCAAUCGACACCAGCUAGUCCUUACGAUCAGCGUCGUUUACCAACUUCAUCUGAUAUGAACGGUCUAGCCGAAUCAUUGAUUGGAGGGGUAAGAAUGUCUAA--
...((((.(((.(((((.....(((........))).....))))))))))))(((((..(((((((....((((.(((.....)))..)))).)).))))).)))))..........-- ( -30.70)
>DroYak_CAF1 110285 109 + 1
GCCACGAGCGCAUGAUCCAAUCGACACCAGCUAGUCCCUACGAUCAGCGUCGUUUACCAACUUCAUCUGAUAUGAACGGCCUAGCCGAAUCAUUGAUUGGAGGGGUAAU-----------
...((((.(((.(((((.....(((........))).....))))))))))))(((((..(((((((....((((.((((...))))..)))).)).))))).))))).----------- ( -31.60)
>DroAna_CAF1 98932 115 + 1
GCCACGAACGCAUGAUCCAAUCGACACCAGCUAGUCCUUACGAUCAGCGUCGUUUACCAACUUCAUAUGAAAUGAACGGCCUAGCCGAGUCAUUGAUUGGAGGGGUAAGUGU-AAU----
...((((.(((.(((((.....(((........))).....))))))))))))(((((..(((((.....(((((.((((...))))..)))))...))))).)))))....-...---- ( -33.50)
>consensus
GCCACGAACGCAUGAUCCAAUCGACACCAGCUAGUCCCUACGAUCAGCGUCGUUUACCAACUUCAUCUGAUAUGAACGGCCUAGCCGAAUCAUUGAUUGGAGGGGUAAGUA___A_____
...(((.((((.(((((.....(((........))).....))))))))))))(((((..(((((......((((.((((...))))..))))....))))).)))))............ (-30.85 = -30.13 +  -0.72)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:50:23 2006