Locus 5266

Sequence ID 3L_DroMel_CAF1
Location 14,544,174 – 14,544,366
Length 192
Max. P 0.780786
window8329 window8330

overview

Window 9

Location 14,544,174 – 14,544,267
Length 93
Sequences 6
Columns 107
Reading direction reverse
Mean pairwise identity 79.30
Mean single sequence MFE -22.95
Consensus MFE -11.65
Energy contribution -11.65
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -2.25
Structure conservation index 0.51
SVM decision value 0.48
SVM RNA-class probability 0.753886
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14544174 93 - 23771897
CAAGCGAUGGAGUCCAUUUUGAGUUUAUUGUUUGAUGAUUUGAACAUUUUAUA----UGUGUACGUUUG----------GCUCUGUGUGUGUGUGUGUGUUAGUCGC
(((((((((((.((......)).)))))))))))..(((...(((((..((((----((..((((....----------....))))..)))))).))))).))).. ( -24.30)
>DroSec_CAF1 18217 89 - 1
CAAGCGAUGGAGUCCAUUUUGAGUUUAUUGUUUGAUGAUUUGAACAUUUUAUA----UGUGUAUGUUUG----------GCUCUGUGUG----UGUGAGUUAGUCGC
(((((((((((.((......)).)))))))))))..((((.((((((......----.....))))))(----------((((......----...))))))))).. ( -19.00)
>DroWil_CAF1 152773 89 - 1
CAAGCGAUGGACUCCAUUUUGAGUUUAUUGUUUGAUGAUUUGAACAUUUUUUA----UAUGCAUAUCUC----------AGCAAGUAUG----UGAGAGGUCGUUGG
((((((((((((((......))))))))))))))........(((((((((((----(((((.......----------.....)))))----)))))))).))).. ( -26.40)
>DroYak_CAF1 19838 89 - 1
CAAGCGAUGGAGUCCAUUUUGAGUUUAUUGUUUGAUGAUUUGAACAUUUUAUA----UGUGUAUGUUUG----------CCUCUGCGUG----UGUGUGUUAGUCGC
(((((((((((.((......)).)))))))))))..(((...(((((..((((----((((((....))----------)....)))))----)).))))).))).. ( -22.00)
>DroAna_CAF1 17674 99 - 1
CAAGCGAUGGAGUCCAUUUUGAGUUUAUUGUUUGAUGAUUUGAACAUUUUAUA----UAUGUAUGUGUGUGCGCCUGUAUCUCUGCAUG----UGUGAGUUAGUCCU
(((((((((((.((......)).))))))))))).......((....((((((----((((((.(.(.((((....))))).)))))))----))))))....)).. ( -24.40)
>DroPer_CAF1 23351 81 - 1
CAAGCGAUGGAGUCCAUUUUGAGUUUAUUGUUUGAUGAUUUGAACAUUUUAUAUACAUGUGUAUGUAUA----------GCCAUGUGUG----U------------G
(((((((((((.((......)).)))))))))))...............((((((((((.((.......----------))))))))))----)------------) ( -21.60)
>consensus
CAAGCGAUGGAGUCCAUUUUGAGUUUAUUGUUUGAUGAUUUGAACAUUUUAUA____UGUGUAUGUUUG__________GCUCUGUGUG____UGUGAGUUAGUCGC
(((((((((((.((......)).)))))))))))......................................................................... (-11.65 = -11.65 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 14,544,267 – 14,544,366
Length 99
Sequences 5
Columns 99
Reading direction reverse
Mean pairwise identity 86.81
Mean single sequence MFE -26.84
Consensus MFE -19.12
Energy contribution -19.22
Covariance contribution 0.10
Combinations/Pair 1.00
Mean z-score -2.08
Structure conservation index 0.71
SVM decision value 0.56
SVM RNA-class probability 0.780786
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14544267 99 - 23771897
AAGACCGAGAGGGAAAGGGACAGCAUAGACAGUAGGGGAAGUUGGGGAAGCCCCAUGUUUUUAACGCGCUCGACAUGAAAAUGAGCAUGAAACGUGCGA
....((....))....(((...((..(((((...((((............)))).))))).....)).)))..(((....))).(((((...))))).. ( -23.40)
>DroSec_CAF1 18306 92 - 1
AAGACCGAGCGGGAAAGGGACAGC-------GUAGGGGAAGUUGGGGAAGCCCCAUGUUUUUAACGCGCUCGACAUGAAAAUGAGCAUGAAACGUGCGA
.....(((((.(........).((-------((..((((...(((((...)))))..))))..))))))))).(((....))).(((((...))))).. ( -29.80)
>DroSim_CAF1 18804 92 - 1
AAGACCGAGCGGGAAAGGGACAGC-------GUAGGGGAAGUUGGGGAAGCCCCAUGUUUUUAACGCGCUCGACAUGAAAAUGAGCAUGAAACGUGCGA
.....(((((.(........).((-------((..((((...(((((...)))))..))))..))))))))).(((....))).(((((...))))).. ( -29.80)
>DroEre_CAF1 18748 92 - 1
CAGACCGAGAGGGAAAGGGACAGC-------GAAGGGGAAGUUGGGGAAGCCCCAUGUUUUUAACGCGCUCGACAUGAAAAUGAGCAUGAAACGUGCGA
....((....))....(((...((-------(...(((((..(((((...)))))..)))))..))).)))..(((....))).(((((...))))).. ( -26.70)
>DroAna_CAF1 17773 75 - 1
-----------------AGACAGC-------GAGGGGGAAGGUGGGGAUGCCCCAUGUUUUUAACGCGCUCGACAUGAAAAUGAGCAUGAAACGUGCGA
-----------------....(((-------(...(((((.((((((...)))))).)))))....))))...(((....))).(((((...))))).. ( -24.50)
>consensus
AAGACCGAGAGGGAAAGGGACAGC_______GUAGGGGAAGUUGGGGAAGCCCCAUGUUUUUAACGCGCUCGACAUGAAAAUGAGCAUGAAACGUGCGA
....((....)).......................(((((..(((((...)))))..)))))..(((((....((((........))))....))))). (-19.12 = -19.22 +   0.10)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:45:56 2006