Locus 4730

Sequence ID 3R_DroMel_CAF1
Location 12,417,060 – 12,417,154
Length 94
Max. P 0.998619
window7767 window7768

overview

Window 7

Location 12,417,060 – 12,417,154
Length 94
Sequences 4
Columns 95
Reading direction forward
Mean pairwise identity 79.07
Mean single sequence MFE -24.20
Consensus MFE -17.20
Energy contribution -16.82
Covariance contribution -0.38
Combinations/Pair 1.19
Mean z-score -2.89
Structure conservation index 0.71
SVM decision value 3.16
SVM RNA-class probability 0.998619
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12417060 94 + 27905053
UGCCAUUGAAGUUGCAAUUUCAGUGGCAACAGCGGCAUAAAACCCAAUGCAACACAGCAACAGCAGCAGCAGCUACAUGAGAGCAGCAAACAUA-
((((((((((((....))))))))))))...((.((((........))))......((....)).)).((.(((.......))).)).......- ( -26.70)
>DroSec_CAF1 16010 94 + 1
UGCCAUUGAAGCUGCAAUUUCAGUGGCAACAGCGGCAUAAAACCCAAUGCAACACAGCAACAGCAGCAGCAGCUACAUGAGAGCAGCAUACAUA-
..........(((((..((((((((((..(.((.((((........))))......((....)).)).)..))))).)))))))))).......- ( -25.90)
>DroEre_CAF1 16498 86 + 1
UGCCAUUGAGGCUGCAAUUUCAGUGGCAACAGCGGUAUAAAACCCAAU--------GCAACUACAGCAGCAGCUACACGAGGGCAGCAAACAUA-
((((..((.((((((........((....))(.(((.....))))..(--------((.......))))))))).))....)))).........- ( -22.90)
>DroYak_CAF1 16645 77 + 1
UGCCAUUGAAGCUGCAAUUUCAAUGGCAA--------UGCAACACA----------GCAACUUCAACGGCAGCUACACGAGGCCAGCAAACACAA
(((((((((((......))))))))))).--------(((......----------)))........(((..(.....)..)))........... ( -21.30)
>consensus
UGCCAUUGAAGCUGCAAUUUCAGUGGCAACAGCGGCAUAAAACCCAAU________GCAACAGCAGCAGCAGCUACACGAGAGCAGCAAACAUA_
(((((((((((......)))))))))))........................................((.(((.......))).))........ (-17.20 = -16.82 +  -0.38)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 12,417,060 – 12,417,154
Length 94
Sequences 4
Columns 95
Reading direction reverse
Mean pairwise identity 79.07
Mean single sequence MFE -27.62
Consensus MFE -16.59
Energy contribution -16.71
Covariance contribution 0.12
Combinations/Pair 1.11
Mean z-score -2.07
Structure conservation index 0.60
SVM decision value 0.70
SVM RNA-class probability 0.827189
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12417060 94 - 27905053
-UAUGUUUGCUGCUCUCAUGUAGCUGCUGCUGCUGUUGCUGUGUUGCAUUGGGUUUUAUGCCGCUGUUGCCACUGAAAUUGCAACUUCAAUGGCA
-...((..(((((......))))).))....(((((((....((((((...(((.....)))((....)).........))))))..))))))). ( -26.30)
>DroSec_CAF1 16010 94 - 1
-UAUGUAUGCUGCUCUCAUGUAGCUGCUGCUGCUGUUGCUGUGUUGCAUUGGGUUUUAUGCCGCUGUUGCCACUGAAAUUGCAGCUUCAAUGGCA
-...(((((..((((..(((((((.((.((....)).))...))))))).))))..))))).(((((((...(((......)))...))))))). ( -27.80)
>DroEre_CAF1 16498 86 - 1
-UAUGUUUGCUGCCCUCGUGUAGCUGCUGCUGUAGUUGC--------AUUGGGUUUUAUACCGCUGUUGCCACUGAAAUUGCAGCCUCAAUGGCA
-...((.((..((((..((((((((((....))))))))--------)).))))..)).)).(((((((...(((......)))...))))))). ( -29.30)
>DroYak_CAF1 16645 77 - 1
UUGUGUUUGCUGGCCUCGUGUAGCUGCCGUUGAAGUUGC----------UGUGUUGCA--------UUGCCAUUGAAAUUGCAGCUUCAAUGGCA
........((((........)))).((((((((((((((----------...(((.((--------.......)).))).)))))))))))))). ( -27.10)
>consensus
_UAUGUUUGCUGCCCUCAUGUAGCUGCUGCUGCAGUUGC________AUUGGGUUUUAUGCCGCUGUUGCCACUGAAAUUGCAGCUUCAAUGGCA
........(((((......))))).(((..((..(((((............(((..............))).........)))))..))..))). (-16.59 = -16.71 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:37:34 2006