Locus 4483

Sequence ID 2L_DroMel_CAF1
Location 12,840,448 – 12,840,549
Length 101
Max. P 0.991419
window7049 window7050

overview

Window 9

Location 12,840,448 – 12,840,549
Length 101
Sequences 5
Columns 106
Reading direction forward
Mean pairwise identity 77.17
Mean single sequence MFE -25.44
Consensus MFE -13.84
Energy contribution -15.76
Covariance contribution 1.92
Combinations/Pair 1.15
Mean z-score -2.36
Structure conservation index 0.54
SVM decision value 1.76
SVM RNA-class probability 0.975908
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12840448 101 + 22407834
UUUUGCGAACAUUGCUUUAGCAAUGUGUA-----UAUAGCUGUUUUCUUUUAGCUACCCUGUAGUUAAAAAUGGGAUUGGGUAUGUAUAAUAGCCGAGCAGUAGAA
..((((..(((((((....)))))))(((-----((((.((..(..(((((((((((...))))))))))..)..)..)).))))))).........))))..... ( -28.40)
>DroSec_CAF1 21238 101 + 1
UUUUGCGAACAUUGCUUUAGCAAUGUGUA-----UAUAGCUGUUUUCUUUUAGCUACCCUGUAGUUAAAUAUGGGAUUGGGUAUGUAUAAUAGCCCAUCAGUAGAA
.(((((..(((((((....)))))))(((-----((((.((..(..(.(((((((((...)))))))))...)..)..)).)))))))............))))). ( -28.30)
>DroSim_CAF1 23483 101 + 1
UUUUGCGAACAUUGCUUUAGCAAUGUGUA-----UAUAGCUGUUUUCUUUUCGCUACCCUGUAGUUAAAUAUGGGAUUGGGUAUGUAUAAAAGCCUGUCAGUAGAA
.(((((..(((((((....)))))))(((-----((((.((..(..(.(((.(((((...))))).)))...)..)..)).)))))))............))))). ( -24.70)
>DroEre_CAF1 26960 86 + 1
UCUUGCGAACAUUGCUUUAGCAAUGUGUACUCCACAUAGCUCUUUUCUUUUCAGUACCCUGUAGCGGGA-AUGGCAAUGGGUA----GU---------------AG
........(((((((....))))))).((((((.(((.(((.((..(.((.(((....))).)).)..)-).))).))))).)----))---------------). ( -24.20)
>DroYak_CAF1 21991 87 + 1
UUUUGCGAACAUUGCUUUCGCAAUGUGUA-----UAUAGCUCUUUUCUUUUCAGUACCCUGUAGCUGUA-AUGACAUAGGGUA----UAAUA---------UACAA
........(((((((....)))))))(((-----(((((.......)).....(((((((((..(....-..)..))))))))----).)))---------))).. ( -21.60)
>consensus
UUUUGCGAACAUUGCUUUAGCAAUGUGUA_____UAUAGCUGUUUUCUUUUCGCUACCCUGUAGUUAAA_AUGGGAUUGGGUAUGUAUAAUAGCC___CAGUAGAA
........(((((((....)))))))........((((.((..((((.(((((((((...)))))))))...))))..)).))))..................... (-13.84 = -15.76 +   1.92)

alignment

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secondary structure

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dotplot

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Window 0

Location 12,840,448 – 12,840,549
Length 101
Sequences 5
Columns 106
Reading direction reverse
Mean pairwise identity 77.17
Mean single sequence MFE -19.89
Consensus MFE -13.31
Energy contribution -13.31
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -2.41
Structure conservation index 0.67
SVM decision value 2.27
SVM RNA-class probability 0.991419
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12840448 101 - 22407834
UUCUACUGCUCGGCUAUUAUACAUACCCAAUCCCAUUUUUAACUACAGGGUAGCUAAAAGAAAACAGCUAUA-----UACACAUUGCUAAAGCAAUGUUCGCAAAA
......(((..((((........(((((...................))))).............))))...-----...(((((((....)))))))..)))... ( -17.01)
>DroSec_CAF1 21238 101 - 1
UUCUACUGAUGGGCUAUUAUACAUACCCAAUCCCAUAUUUAACUACAGGGUAGCUAAAAGAAAACAGCUAUA-----UACACAUUGCUAAAGCAAUGUUCGCAAAA
.........((((.(((.....)))))))..(((.............)))(((((..........)))))..-----...(((((((....)))))))........ ( -17.42)
>DroSim_CAF1 23483 101 - 1
UUCUACUGACAGGCUUUUAUACAUACCCAAUCCCAUAUUUAACUACAGGGUAGCGAAAAGAAAACAGCUAUA-----UACACAUUGCUAAAGCAAUGUUCGCAAAA
.....(((.....(((((.....(((((...................)))))...)))))....))).....-----...(((((((....)))))))........ ( -17.81)
>DroEre_CAF1 26960 86 - 1
CU---------------AC----UACCCAUUGCCAU-UCCCGCUACAGGGUACUGAAAAGAAAAGAGCUAUGUGGAGUACACAUUGCUAAAGCAAUGUUCGCAAGA
.(---------------((----(.(((((.(((..-.(((......)))..((....))....).)).))).)))))).(((((((....)))))))((....)) ( -24.00)
>DroYak_CAF1 21991 87 - 1
UUGUA---------UAUUA----UACCCUAUGUCAU-UACAGCUACAGGGUACUGAAAAGAAAAGAGCUAUA-----UACACAUUGCGAAAGCAAUGUUCGCAAAA
..(((---------(((..----((((((..((...-....))...))))))((....)).........)))-----)))(((((((....)))))))........ ( -23.20)
>consensus
UUCUACUG___GGCUAUUAUACAUACCCAAUCCCAU_UUUAACUACAGGGUAGCGAAAAGAAAACAGCUAUA_____UACACAUUGCUAAAGCAAUGUUCGCAAAA
.......................(((((...................)))))............................(((((((....)))))))........ (-13.31 = -13.31 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:18:52 2006