Locus 7300

Sequence ID 3R_DroMel_CAF1
Location 19,274,244 – 19,274,342
Length 98
Max. P 0.995148
window11802 window11803

overview

Window 2

Location 19,274,244 – 19,274,342
Length 98
Sequences 4
Columns 103
Reading direction forward
Mean pairwise identity 86.67
Mean single sequence MFE -28.37
Consensus MFE -23.46
Energy contribution -24.15
Covariance contribution 0.69
Combinations/Pair 1.08
Mean z-score -3.29
Structure conservation index 0.83
SVM decision value 2.55
SVM RNA-class probability 0.995148
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 19274244 98 + 27905053
UUGUAUCAAUUUCACUGGGCCAAAAGCGUAGCCAUACACCACAACUGCUUUUGGCCCAUCAGUGUCAGGCUGUCAGUCAGUCAGCACAAAAAUA-----AAAU
...............(((((((((((((.................)))))))))))))...((((..(((((.....))))).)))).......-----.... ( -30.43)
>DroSec_CAF1 69745 93 + 1
UUGUAUCAAUUUCACUGGGCCAAAAGCGUAGCCAUACAGCACAACUGCUUUUGGCCCAUCAGUGUCAGGCUGUCAGUCAGUCAGCGCACA----------AAA
((((...........((((((((((((((.((......))...)).))))))))))))...((((..(((((.....))))).)))))))----------).. ( -33.20)
>DroSim_CAF1 71944 103 + 1
UUGUAUCAAUUUCACUGGGCCAAAAGCGUAGCCAUACACCACAACUGCUUUUGGCCCAUCAGUUUCAGGCUGUCAGUCAGUCAGCACAAAAAUGAAAAAAAAA
.........(((((.(((((((((((((.................))))))))))))).........(((((.....)))))..........)))))...... ( -29.13)
>DroEre_CAF1 71338 92 + 1
UUGUAUCAAUUUCACUGGCCCAAACGCCUAGCCAUAGAGCACAACUGCUUUUGGCCCAUCAGUGUCAGCCUGUCAGUCAGUCAGCAAAAACC-----------
((((........(((((((......)))..((((.((((((....)))))))))).....))))...(.(((.....))).).)))).....----------- ( -20.70)
>consensus
UUGUAUCAAUUUCACUGGGCCAAAAGCGUAGCCAUACACCACAACUGCUUUUGGCCCAUCAGUGUCAGGCUGUCAGUCAGUCAGCACAAAAA________AAA
...............(((((((((((((((....))).........))))))))))))...((((..(((((.....))))).))))................ (-23.46 = -24.15 +   0.69)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 19,274,244 – 19,274,342
Length 98
Sequences 4
Columns 103
Reading direction reverse
Mean pairwise identity 86.67
Mean single sequence MFE -30.70
Consensus MFE -24.92
Energy contribution -25.92
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -2.06
Structure conservation index 0.81
SVM decision value 1.07
SVM RNA-class probability 0.910413
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 19274244 98 - 27905053
AUUU-----UAUUUUUGUGCUGACUGACUGACAGCCUGACACUGAUGGGCCAAAAGCAGUUGUGGUGUAUGGCUACGCUUUUGGCCCAGUGAAAUUGAUACAA
....-----.....((((((((.(.....).))))....((((...(((((((((((....(((((.....))))))))))))))))))))........)))) ( -31.50)
>DroSec_CAF1 69745 93 - 1
UUU----------UGUGCGCUGACUGACUGACAGCCUGACACUGAUGGGCCAAAAGCAGUUGUGCUGUAUGGCUACGCUUUUGGCCCAGUGAAAUUGAUACAA
..(----------(((((((((.(.....).))))....((((...(((((((((((.((...(((....))).))))))))))))))))).....).))))) ( -33.30)
>DroSim_CAF1 71944 103 - 1
UUUUUUUUUCAUUUUUGUGCUGACUGACUGACAGCCUGAAACUGAUGGGCCAAAAGCAGUUGUGGUGUAUGGCUACGCUUUUGGCCCAGUGAAAUUGAUACAA
..((..(((((((((((.((((.(.....).)))).)))))....((((((((((((....(((((.....)))))))))))))))))))))))..))..... ( -34.10)
>DroEre_CAF1 71338 92 - 1
-----------GGUUUUUGCUGACUGACUGACAGGCUGACACUGAUGGGCCAAAAGCAGUUGUGCUCUAUGGCUAGGCGUUUGGGCCAGUGAAAUUGAUACAA
-----------...(((..(((.(((.....)))((((((.((....(((((..((((....))))...))))).)).)))..))))))..)))......... ( -23.90)
>consensus
UUU________UUUUUGUGCUGACUGACUGACAGCCUGACACUGAUGGGCCAAAAGCAGUUGUGCUGUAUGGCUACGCUUUUGGCCCAGUGAAAUUGAUACAA
..................((((.(.....).))))....((((...((((((((((((((..((...))..)))..)))))))))))))))............ (-24.92 = -25.92 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:42:25 2006