Locus 5513

Sequence ID 2L_DroMel_CAF1
Location 15,775,518 – 15,775,625
Length 107
Max. P 0.968541
window8752 window8753

overview

Window 2

Location 15,775,518 – 15,775,625
Length 107
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 91.86
Mean single sequence MFE -32.02
Consensus MFE -28.70
Energy contribution -29.37
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -1.93
Structure conservation index 0.90
SVM decision value 1.63
SVM RNA-class probability 0.968541
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15775518 107 + 22407834
----------AAUAAAUUUGUCGUGCAGCGGUGCAAAAAGGCAAAAGC---UGCCUUGAAUUGCACUACGAAUCACUCUAGCGUGCUAUCAAUUACUGUGGCAAGUGUUGCACGUGCCAC
----------.........(((((((((((((((((.((((((.....---))))))...))))))).............((.((((((........)))))).)))))))))).))... ( -36.70)
>DroPse_CAF1 54500 107 + 1
----------AAUAAAUUUGUCGUGCAGCGAUGCAAAAAGGAAAAAGC---UGCCUUGAAUUGCACUACGAAUCAGUCUAGCGUGCUAUCAAUUACUGUGGCAAGUGUUGCACGUGCCAC
----------.........((((((((((..(((((.((((.......---..))))...)))))...............((.((((((........)))))).)))))))))).))... ( -26.70)
>DroEre_CAF1 28862 117 + 1
AAAAAAUACAUAUAAAUUUGUCGUGCAGCGGUGCAAAAAGGCAAAAGC---UGCCUUGAAUUGCACUACGAAUCACUCUAGCGUGCUAUCAAUUACUGUGGCAAGUGUUGCACGUGCCAC
...................(((((((((((((((((.((((((.....---))))))...))))))).............((.((((((........)))))).)))))))))).))... ( -36.70)
>DroWil_CAF1 66795 107 + 1
----------AGAAAAUUUGUCGUGCAGCGAUGCAAAAAGGCACAAGC---UGCCUUGAAUUGCACUAUGAAUCAGUCUAGCGUGCUAUCAAUUACUGUGGCAAGUGUUGCACGUGCCAC
----------.........((((((((((..(((((.((((((.....---))))))...)))))...............((.((((((........)))))).)))))))))).))... ( -31.90)
>DroAna_CAF1 24150 110 + 1
----------AAUAUAUUUGUCGUGCAGCGGUGCAAAAUGGCAAACGCUGCUGCCUCGAAUUGCACUACGAAUCACUCUAGCGUGCUAUCAAUUACUGUGGCAAGUGUUGCACGUGCCAC
----------.........(((((((((((((((((...((((........)))).....))))))).............((.((((((........)))))).)))))))))).))... ( -33.40)
>DroPer_CAF1 68345 107 + 1
----------AAUAAAUUUGUCGUGCAGCGAUGCAAAAAGGAAAAAGC---UGCCUUGAAUUGCACUACGAAUCAGUCUAGCGUGCUAUCAAUUACUGUGGCAAGUGUUGCACGUGCCAC
----------.........((((((((((..(((((.((((.......---..))))...)))))...............((.((((((........)))))).)))))))))).))... ( -26.70)
>consensus
__________AAUAAAUUUGUCGUGCAGCGAUGCAAAAAGGCAAAAGC___UGCCUUGAAUUGCACUACGAAUCACUCUAGCGUGCUAUCAAUUACUGUGGCAAGUGUUGCACGUGCCAC
...................((((((((((..(((((.((((((........))))))...)))))...............((.((((((........)))))).)))))))))).))... (-28.70 = -29.37 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 15,775,518 – 15,775,625
Length 107
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 91.86
Mean single sequence MFE -31.58
Consensus MFE -28.27
Energy contribution -28.38
Covariance contribution 0.11
Combinations/Pair 1.06
Mean z-score -1.90
Structure conservation index 0.90
SVM decision value 1.54
SVM RNA-class probability 0.962836
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15775518 107 - 22407834
GUGGCACGUGCAACACUUGCCACAGUAAUUGAUAGCACGCUAGAGUGAUUCGUAGUGCAAUUCAAGGCA---GCUUUUGCCUUUUUGCACCGCUGCACGACAAAUUUAUU----------
((((((.(((...))).)))))).((...((.((((.(((....))).......((((((...((((((---(...))))))).)))))).))))))..)).........---------- ( -34.60)
>DroPse_CAF1 54500 107 - 1
GUGGCACGUGCAACACUUGCCACAGUAAUUGAUAGCACGCUAGACUGAUUCGUAGUGCAAUUCAAGGCA---GCUUUUUCCUUUUUGCAUCGCUGCACGACAAAUUUAUU----------
((((((.(((...))).)))))).((..((((..((((....((.....))...))))...)))).(((---((.................)))))...)).........---------- ( -27.33)
>DroEre_CAF1 28862 117 - 1
GUGGCACGUGCAACACUUGCCACAGUAAUUGAUAGCACGCUAGAGUGAUUCGUAGUGCAAUUCAAGGCA---GCUUUUGCCUUUUUGCACCGCUGCACGACAAAUUUAUAUGUAUUUUUU
((((((.(((...))).)))))).((...((.((((.(((....))).......((((((...((((((---(...))))))).)))))).))))))..))................... ( -34.60)
>DroWil_CAF1 66795 107 - 1
GUGGCACGUGCAACACUUGCCACAGUAAUUGAUAGCACGCUAGACUGAUUCAUAGUGCAAUUCAAGGCA---GCUUGUGCCUUUUUGCAUCGCUGCACGACAAAUUUUCU----------
((((((.(((...))).)))))).((...((.((((..((((((.....)).))))((((...((((((---.....)))))).))))...))))))..)).........---------- ( -31.30)
>DroAna_CAF1 24150 110 - 1
GUGGCACGUGCAACACUUGCCACAGUAAUUGAUAGCACGCUAGAGUGAUUCGUAGUGCAAUUCGAGGCAGCAGCGUUUGCCAUUUUGCACCGCUGCACGACAAAUAUAUU----------
((((((.(((...))).)))))).(((.(((....(((......)))..((((..(((........)))((((((..(((......))).))))))))))))).)))...---------- ( -34.30)
>DroPer_CAF1 68345 107 - 1
GUGGCACGUGCAACACUUGCCACAGUAAUUGAUAGCACGCUAGACUGAUUCGUAGUGCAAUUCAAGGCA---GCUUUUUCCUUUUUGCAUCGCUGCACGACAAAUUUAUU----------
((((((.(((...))).)))))).((..((((..((((....((.....))...))))...)))).(((---((.................)))))...)).........---------- ( -27.33)
>consensus
GUGGCACGUGCAACACUUGCCACAGUAAUUGAUAGCACGCUAGACUGAUUCGUAGUGCAAUUCAAGGCA___GCUUUUGCCUUUUUGCACCGCUGCACGACAAAUUUAUU__________
((((((.(((...))).)))))).((...((.((((......((.....))...((((((...((((((........)))))).)))))).))))))..))................... (-28.27 = -28.38 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:46:04 2006