Locus 5322

Sequence ID 3R_DroMel_CAF1
Location 13,934,698 – 13,934,804
Length 106
Max. P 0.993421
window8676 window8677

overview

Window 6

Location 13,934,698 – 13,934,804
Length 106
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 86.48
Mean single sequence MFE -33.80
Consensus MFE -33.47
Energy contribution -33.12
Covariance contribution -0.36
Combinations/Pair 1.11
Mean z-score -1.29
Structure conservation index 0.99
SVM decision value 0.78
SVM RNA-class probability 0.847772
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13934698 106 + 27905053
-----------UCGGUGAGAAAGUGUGGCGUCGGUGGUGUAAUGGUUAGCAUAGUUGCCUUCCAAGCAGUUGACCCGGGUUCGAUUCCCGGCCGACGCACAUUAAGUUUUUUUUA---AC
-----------....((((((((.(((((((((((........(((((((...(((........))).)))))))((((.......)))))))))))).))).....))))))))---.. ( -34.80)
>DroSec_CAF1 196696 109 + 1
-----------UCGGUGCAAAAAUGUGGCGUCGGUGGUGUAAUGGUUAGCAUAGUUGCCUUCCAAGCAGUUGACCCGGGUUCGAUUCCCGGCCGACGCACAUUAAAUAUUUUUUAUAUAC
-----------..........((((((.(((((((........(((((((...(((........))).)))))))((((.......)))))))))))))))))................. ( -33.80)
>DroSim_CAF1 211511 109 + 1
-----------UCGGUGCAAAAAUGUGGCGUCGGUGGUGUAAUGGUUAGCAUAGUUGCCUUCCAAGCAGUUGACCCGGGUUCGAUUCCCGGCCGACGCACAUUAAAUAUUUUUUAUAUAC
-----------..........((((((.(((((((........(((((((...(((........))).)))))))((((.......)))))))))))))))))................. ( -33.80)
>DroEre_CAF1 197280 106 + 1
-----------UCCUUGCAAAAAUGUGGCGUCGGUGGUGUAAUGGUUAGCAUAGUUGCCUUCCAAGCAGUUGACCCGGGUUCGAUUCCCGGCCGACGCACAUUCAAUUUUUUUA---AAC
-----------..........((((((.(((((((........(((((((...(((........))).)))))))((((.......)))))))))))))))))...........---... ( -33.20)
>DroYak_CAF1 218040 103 + 1
-----------UCGAUGUGAAAAUGUGGCGUCGGUGGUGUAAUGGUUAGCAUAGUUGCCUUCCAAGCAGUUGACCCGGGUUCGAUUCCCGGCCGACGCACAUUGAUUAUUUUUU------
-----------.....((((.((((((.(((((((........(((((((...(((........))).)))))))((((.......)))))))))))))))))..)))).....------ ( -34.30)
>DroAna_CAF1 196504 115 + 1
UCUUUAUAUAGUCUCGCCAAAAACGUGGCGUCGGUGGUGUAAUGGUUAGCAUAGUUGCCUUCCAAGCAGUUGACCCGGGUUCGAUUCCCGGCCGACGCAUGGUAGCUUUUUUUGU-----
...((((((..((.(((((......)))))..))..)))))).((((((((....)))...(((.((.((((..(((((.......))))).)))))).))))))))........----- ( -32.90)
>consensus
___________UCGGUGCAAAAAUGUGGCGUCGGUGGUGUAAUGGUUAGCAUAGUUGCCUUCCAAGCAGUUGACCCGGGUUCGAUUCCCGGCCGACGCACAUUAAAUAUUUUUUA___AC
.....................((((((.(((((((........(((((((...(((........))).)))))))((((.......)))))))))))))))))................. (-33.47 = -33.12 +  -0.36)

alignment

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secondary structure

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dotplot

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Window 7

Location 13,934,698 – 13,934,804
Length 106
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 86.48
Mean single sequence MFE -31.57
Consensus MFE -30.14
Energy contribution -30.37
Covariance contribution 0.22
Combinations/Pair 1.04
Mean z-score -2.26
Structure conservation index 0.95
SVM decision value 2.40
SVM RNA-class probability 0.993421
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13934698 106 - 27905053
GU---UAAAAAAAACUUAAUGUGCGUCGGCCGGGAAUCGAACCCGGGUCAACUGCUUGGAAGGCAACUAUGCUAACCAUUACACCACCGACGCCACACUUUCUCACCGA-----------
..---..............(((((((((((((((.......)))))..........(((..((((....))))..)))........)))))).))))............----------- ( -30.20)
>DroSec_CAF1 196696 109 - 1
GUAUAUAAAAAAUAUUUAAUGUGCGUCGGCCGGGAAUCGAACCCGGGUCAACUGCUUGGAAGGCAACUAUGCUAACCAUUACACCACCGACGCCACAUUUUUGCACCGA-----------
.................(((((((((((((((((.......)))))..........(((..((((....))))..)))........)))))).))))))..........----------- ( -31.70)
>DroSim_CAF1 211511 109 - 1
GUAUAUAAAAAAUAUUUAAUGUGCGUCGGCCGGGAAUCGAACCCGGGUCAACUGCUUGGAAGGCAACUAUGCUAACCAUUACACCACCGACGCCACAUUUUUGCACCGA-----------
.................(((((((((((((((((.......)))))..........(((..((((....))))..)))........)))))).))))))..........----------- ( -31.70)
>DroEre_CAF1 197280 106 - 1
GUU---UAAAAAAAUUGAAUGUGCGUCGGCCGGGAAUCGAACCCGGGUCAACUGCUUGGAAGGCAACUAUGCUAACCAUUACACCACCGACGCCACAUUUUUGCAAGGA-----------
...---..........((((((((((((((((((.......)))))..........(((..((((....))))..)))........)))))).))))))).........----------- ( -33.00)
>DroYak_CAF1 218040 103 - 1
------AAAAAAUAAUCAAUGUGCGUCGGCCGGGAAUCGAACCCGGGUCAACUGCUUGGAAGGCAACUAUGCUAACCAUUACACCACCGACGCCACAUUUUCACAUCGA-----------
------...........(((((((((((((((((.......)))))..........(((..((((....))))..)))........)))))).))))))..........----------- ( -31.80)
>DroAna_CAF1 196504 115 - 1
-----ACAAAAAAAGCUACCAUGCGUCGGCCGGGAAUCGAACCCGGGUCAACUGCUUGGAAGGCAACUAUGCUAACCAUUACACCACCGACGCCACGUUUUUGGCGAGACUAUAUAAAGA
-----.........((......))((((((((((.......)))))..........(((..((((....))))..)))........)))))((((......))))............... ( -31.00)
>consensus
GU___UAAAAAAAAUUUAAUGUGCGUCGGCCGGGAAUCGAACCCGGGUCAACUGCUUGGAAGGCAACUAUGCUAACCAUUACACCACCGACGCCACAUUUUUGCACCGA___________
.................(((((((((((((((((.......)))))..........(((..((((....))))..)))........)))))).))))))..................... (-30.14 = -30.37 +   0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:51:56 2006