Locus 1146

Sequence ID 3L_DroMel_CAF1
Location 3,325,813 – 3,325,919
Length 106
Max. P 0.710941
window1782 window1783

overview

Window 2

Location 3,325,813 – 3,325,919
Length 106
Sequences 5
Columns 108
Reading direction forward
Mean pairwise identity 91.35
Mean single sequence MFE -26.30
Consensus MFE -23.38
Energy contribution -23.30
Covariance contribution -0.08
Combinations/Pair 1.12
Mean z-score -1.29
Structure conservation index 0.89
SVM decision value 0.38
SVM RNA-class probability 0.710941
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3325813 106 + 23771897
AACAAACAAACAAAAAGUUUCAUUCAUCAAAGGAGCAGCGUGAGAGCUGCAAAGACCCUUGGAGUCUUUAGAUCUUUUAAUG--CUUAUGGAGACAGUGCUUCAAGUG
................(((((...(((.(((((((((((......)))))(((((((....).))))))...)))))).)))--......)))))............. ( -25.50)
>DroSec_CAF1 13804 105 + 1
AAGAAACAAACAAAAAGUUUCAUUCAUCAAAGGAGCAGCGUGAGAGCUGCAAAGACCCUUGGAGUCUUUAGAUCUUUUAAUG--UUCGUGG-GACAGUGCUUCAAGUG
................((..(((.(((.(((((((((((......)))))(((((((....).))))))...)))))).)))--...))).-.))............. ( -28.30)
>DroSim_CAF1 6148 106 + 1
AAGAAACAAACAAAAAGUUUCAUUCAUCAAAGGAGCAGCGUGAGAGCUGCAAAGACCCUUGGAGUCUUUAGAUCUUUUAAUG--UUCGUGGAGACAGUGCUUCAAGUG
..(((((.........)))))...(((.(((((((((((......)))))(((((((....).))))))...)))))).)))--....(((((......))))).... ( -27.40)
>DroEre_CAF1 13996 101 + 1
AACAAACA-----AAAGUCUCAUUCAUCAAAGGAGCAGCGUGAGAGCUGCAAAGGCCCUUGGAGUCUUUUGAUCUUUUUAUG--UUUGUGGAGACAGUGCUUCAAGUG
........-----...(((((...(((.(((((((((((......)))))(((((((....).))))))...)))))).)))--......)))))............. ( -27.60)
>DroYak_CAF1 8983 103 + 1
AACAAACA-----AGAGUUUCAUUCAUCAAAGGAGCUGCGUGAGAGCUGCAGAGACCCUUGGAGUCUUUAGAUCUUUUUAUGUAUUUGUGGAGACAGUGCUUCAAGUG
........-----.((((...))))......(((((((((((((((...((((((((....).)))))).)...))))))))))....((....))..)))))..... ( -22.70)
>consensus
AACAAACAAACAAAAAGUUUCAUUCAUCAAAGGAGCAGCGUGAGAGCUGCAAAGACCCUUGGAGUCUUUAGAUCUUUUAAUG__UUUGUGGAGACAGUGCUUCAAGUG
................(((((...(((.(((((((((((......)))))(((((((....).))))))...)))))).)))........)))))............. (-23.38 = -23.30 +  -0.08)

alignment

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secondary structure

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dotplot

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Window 3

Location 3,325,813 – 3,325,919
Length 106
Sequences 5
Columns 108
Reading direction reverse
Mean pairwise identity 91.35
Mean single sequence MFE -23.12
Consensus MFE -17.60
Energy contribution -18.20
Covariance contribution 0.60
Combinations/Pair 1.07
Mean z-score -1.50
Structure conservation index 0.76
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3325813 106 - 23771897
CACUUGAAGCACUGUCUCCAUAAG--CAUUAAAAGAUCUAAAGACUCCAAGGGUCUUUGCAGCUCUCACGCUGCUCCUUUGAUGAAUGAAACUUUUUGUUUGUUUGUU
......((((........(((...--(((((((.((...(((((((.....)))))))(((((......))))))).))))))).)))((((.....))))))))... ( -24.50)
>DroSec_CAF1 13804 105 - 1
CACUUGAAGCACUGUC-CCACGAA--CAUUAAAAGAUCUAAAGACUCCAAGGGUCUUUGCAGCUCUCACGCUGCUCCUUUGAUGAAUGAAACUUUUUGUUUGUUUCUU
.....(((((......-.......--(((((((.((...(((((((.....)))))))(((((......))))))).)))))))....((((.....))))))))).. ( -26.80)
>DroSim_CAF1 6148 106 - 1
CACUUGAAGCACUGUCUCCACGAA--CAUUAAAAGAUCUAAAGACUCCAAGGGUCUUUGCAGCUCUCACGCUGCUCCUUUGAUGAAUGAAACUUUUUGUUUGUUUCUU
.....(((((..............--(((((((.((...(((((((.....)))))))(((((......))))))).)))))))....((((.....))))))))).. ( -26.80)
>DroEre_CAF1 13996 101 - 1
CACUUGAAGCACUGUCUCCACAAA--CAUAAAAAGAUCAAAAGACUCCAAGGGCCUUUGCAGCUCUCACGCUGCUCCUUUGAUGAAUGAGACUUU-----UGUUUGUU
......(((((..(((((......--........((((....)).))((((((.....(((((......))))).))))))......)))))...-----)))))... ( -22.80)
>DroYak_CAF1 8983 103 - 1
CACUUGAAGCACUGUCUCCACAAAUACAUAAAAAGAUCUAAAGACUCCAAGGGUCUCUGCAGCUCUCACGCAGCUCCUUUGAUGAAUGAAACUCU-----UGUUUGUU
...................(((((((........((((....)).))((((((...((((.........))))..))))))..............-----))))))). ( -14.70)
>consensus
CACUUGAAGCACUGUCUCCACAAA__CAUUAAAAGAUCUAAAGACUCCAAGGGUCUUUGCAGCUCUCACGCUGCUCCUUUGAUGAAUGAAACUUUUUGUUUGUUUGUU
......(((((.(((....)))....(((((((.((...(((((((.....)))))))(((((......))))))).)))))))................)))))... (-17.60 = -18.20 +   0.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:00:18 2006