Locus 7457

Sequence ID 3L_DroMel_CAF1
Location 20,014,883 – 20,014,975
Length 92
Max. P 0.859688
window12116 window12117

overview

Window 6

Location 20,014,883 – 20,014,975
Length 92
Sequences 4
Columns 92
Reading direction forward
Mean pairwise identity 77.08
Mean single sequence MFE -22.20
Consensus MFE -12.66
Energy contribution -12.22
Covariance contribution -0.44
Combinations/Pair 1.22
Mean z-score -1.86
Structure conservation index 0.57
SVM decision value 0.13
SVM RNA-class probability 0.599887
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20014883 92 + 23771897
AUGGCCAUUAAUAAGAUUGUUUUAGCAAGAAUUUACGGCCAAGGGCGGGCCUUUUUGGCCAACUCCUCGCCCCUGGUUCGUUGAUUCCCUGG
....(((.........((((....))))(((((.(((((((.(((((((((.....)))).......))))).))).)))).)))))..))) ( -30.61)
>DroSec_CAF1 6893 71 + 1
AUGGCCAUUAAUAAGAUUGUUUUAUCAUGAAUUUACGGCCAAGGGCGG--CCUUUUGGCCAACUCCC-------------------CCCGUA
.(((((........(((......)))..(......)))))).(((.((--((....))))....)))-------------------...... ( -19.00)
>DroSim_CAF1 695 71 + 1
AUGGCCAUUAAUAAGAUUGUUUUAGCAUGAAUUUACGGCCAAGAGCGG--CCUUUUGGCCAACUCCC-------------------CCCGGA
.((((((..........(((....))).........((((......))--))...))))))..(((.-------------------...))) ( -18.60)
>DroYak_CAF1 8260 70 + 1
AUGGCCAUUAAUAAGAUUGUUUUAGCAUGAAUUUACGGCCAAGGGCGGGCCUUUUUGGCC---UCUC-------------------GUCUAU
.(((((..(((......(((....))).....))).))))).(((((((((.....))))---...)-------------------)))).. ( -20.60)
>consensus
AUGGCCAUUAAUAAGAUUGUUUUAGCAUGAAUUUACGGCCAAGGGCGG__CCUUUUGGCCAACUCCC___________________CCCGGA
....................................(((((((((......)))))))))................................ (-12.66 = -12.22 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 20,014,883 – 20,014,975
Length 92
Sequences 4
Columns 92
Reading direction reverse
Mean pairwise identity 77.08
Mean single sequence MFE -23.39
Consensus MFE -11.70
Energy contribution -12.82
Covariance contribution 1.13
Combinations/Pair 1.10
Mean z-score -2.45
Structure conservation index 0.50
SVM decision value 0.82
SVM RNA-class probability 0.859688
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20014883 92 - 23771897
CCAGGGAAUCAACGAACCAGGGGCGAGGAGUUGGCCAAAAAGGCCCGCCCUUGGCCGUAAAUUCUUGCUAAAACAAUCUUAUUAAUGGCCAU
...((((((..(((..(((((((((.......((((.....))))))))))))).)))..))))))((((...............))))... ( -29.97)
>DroSec_CAF1 6893 71 - 1
UACGGG-------------------GGGAGUUGGCCAAAAGG--CCGCCCUUGGCCGUAAAUUCAUGAUAAAACAAUCUUAUUAAUGGCCAU
....((-------------------(((....((((....))--)).)))))((((((.(((....(((......)))..))).)))))).. ( -24.60)
>DroSim_CAF1 695 71 - 1
UCCGGG-------------------GGGAGUUGGCCAAAAGG--CCGCUCUUGGCCGUAAAUUCAUGCUAAAACAAUCUUAUUAAUGGCCAU
......-------------------((((((.((((....))--))))))))((((((.(((...((......)).....))).)))))).. ( -22.30)
>DroYak_CAF1 8260 70 - 1
AUAGAC-------------------GAGA---GGCCAAAAAGGCCCGCCCUUGGCCGUAAAUUCAUGCUAAAACAAUCUUAUUAAUGGCCAU
......-------------------....---(((((....((((.......))))(((......))).................))))).. ( -16.70)
>consensus
UCAGGG___________________GGGAGUUGGCCAAAAAG__CCGCCCUUGGCCGUAAAUUCAUGCUAAAACAAUCUUAUUAAUGGCCAU
.........................(((.((.((((.....)))).)).)))((((((.(((...((......)).....))).)))))).. (-11.70 = -12.82 +   1.13)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:47:34 2006