Locus 4959

Sequence ID 3R_DroMel_CAF1
Location 13,046,143 – 13,046,255
Length 112
Max. P 0.995879
window8114 window8115

overview

Window 4

Location 13,046,143 – 13,046,255
Length 112
Sequences 5
Columns 112
Reading direction forward
Mean pairwise identity 99.11
Mean single sequence MFE -35.38
Consensus MFE -35.10
Energy contribution -35.30
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -2.01
Structure conservation index 0.99
SVM decision value 2.63
SVM RNA-class probability 0.995879
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13046143 112 + 27905053
UUCGAUGGCACAUCCUGCAUUUGUCCUGUAGCCUGGUGUCGCCUUCGAUGCUCGCUAAUCCAUUACCAGCGUCAUUAAUCUAAUGAGCUGGUGCUGCUCGGCGCUCCUCGAC
.((((.(((((((((((((.......)))))...))))).))).))))....((((....((.(((((((.((((((...))))))))))))).))...))))......... ( -36.90)
>DroSec_CAF1 66231 112 + 1
UUCGAUGGCACAUCCUGCAUUUGUCCUGUAGCCUGGUGUCGCCUUCGAUGCUCGCUAAUCCAUUACCAGCGUCAUUAAUCUAAUGAGCUGGUGCUGCUCGGCGCUCCUCGAC
.((((.(((((((((((((.......)))))...))))).))).))))....((((....((.(((((((.((((((...))))))))))))).))...))))......... ( -36.90)
>DroSim_CAF1 58473 112 + 1
UUCGAUGGCACAUCCUGCAUUUGUCCUGUAGCCUGGUGUCGCCUUCGAUGCUCGCUAAUCCAUUACCAGCGUCAUUAAUCUAAUGAGCUGGUGCUGCUCGGCGCUCCUCGAC
.((((.(((((((((((((.......)))))...))))).))).))))....((((....((.(((((((.((((((...))))))))))))).))...))))......... ( -36.90)
>DroEre_CAF1 66931 112 + 1
UUCAAUGGCACAUCCUGCAUUUGUCCUGUAGCCUGGUGUCGCCUUCGAUGCUCGCUAAUCCAUUACCAGCGUCAUUAAUCUAAUGAGCUGGUGCUGCUCGGCGCUCCUCGAC
......(((((((((((((.......)))))...))))).))).((((.(..((((....((.(((((((.((((((...))))))))))))).))...))))..).)))). ( -36.40)
>DroYak_CAF1 68100 112 + 1
UUCAAUGGCACAUCCUGCAUUUGUCCUGUAGCCUGGUGUCGCCUUCGAUGCUCGCUAAUCCAUUACCAGCGUCAUUAAUCUAAUGAGCUGCUGCUGCUCGGCGCUCCUCGAC
......(((((((((((((.......)))))...))))).))).((((.(..((((....((.((.((((.((((((...)))))))))).)).))...))))..).)))). ( -29.80)
>consensus
UUCGAUGGCACAUCCUGCAUUUGUCCUGUAGCCUGGUGUCGCCUUCGAUGCUCGCUAAUCCAUUACCAGCGUCAUUAAUCUAAUGAGCUGGUGCUGCUCGGCGCUCCUCGAC
......(((((((((((((.......)))))...))))).))).((((.(..((((....((.(((((((.((((((...))))))))))))).))...))))..).)))). (-35.10 = -35.30 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 13,046,143 – 13,046,255
Length 112
Sequences 5
Columns 112
Reading direction reverse
Mean pairwise identity 99.11
Mean single sequence MFE -35.76
Consensus MFE -35.30
Energy contribution -35.50
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -1.45
Structure conservation index 0.99
SVM decision value 0.93
SVM RNA-class probability 0.883351
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13046143 112 - 27905053
GUCGAGGAGCGCCGAGCAGCACCAGCUCAUUAGAUUAAUGACGCUGGUAAUGGAUUAGCGAGCAUCGAAGGCGACACCAGGCUACAGGACAAAUGCAGGAUGUGCCAUCGAA
.((((.(..(((..(.((..((((((((((((...)))))).))))))..))..)..)))..).)))).(((.(((((..((............)).)).))))))...... ( -36.60)
>DroSec_CAF1 66231 112 - 1
GUCGAGGAGCGCCGAGCAGCACCAGCUCAUUAGAUUAAUGACGCUGGUAAUGGAUUAGCGAGCAUCGAAGGCGACACCAGGCUACAGGACAAAUGCAGGAUGUGCCAUCGAA
.((((.(..(((..(.((..((((((((((((...)))))).))))))..))..)..)))..).)))).(((.(((((..((............)).)).))))))...... ( -36.60)
>DroSim_CAF1 58473 112 - 1
GUCGAGGAGCGCCGAGCAGCACCAGCUCAUUAGAUUAAUGACGCUGGUAAUGGAUUAGCGAGCAUCGAAGGCGACACCAGGCUACAGGACAAAUGCAGGAUGUGCCAUCGAA
.((((.(..(((..(.((..((((((((((((...)))))).))))))..))..)..)))..).)))).(((.(((((..((............)).)).))))))...... ( -36.60)
>DroEre_CAF1 66931 112 - 1
GUCGAGGAGCGCCGAGCAGCACCAGCUCAUUAGAUUAAUGACGCUGGUAAUGGAUUAGCGAGCAUCGAAGGCGACACCAGGCUACAGGACAAAUGCAGGAUGUGCCAUUGAA
.((((.(..(((..(.((..((((((((((((...)))))).))))))..))..)..)))..).)))).(((.(((((..((............)).)).))))))...... ( -36.60)
>DroYak_CAF1 68100 112 - 1
GUCGAGGAGCGCCGAGCAGCAGCAGCUCAUUAGAUUAAUGACGCUGGUAAUGGAUUAGCGAGCAUCGAAGGCGACACCAGGCUACAGGACAAAUGCAGGAUGUGCCAUUGAA
.((((((.(((((((((.......))))......(..(((.(((((((.....)))))))..)))..).)))).).)).(((.(((...(.......)..)))))).)))). ( -32.40)
>consensus
GUCGAGGAGCGCCGAGCAGCACCAGCUCAUUAGAUUAAUGACGCUGGUAAUGGAUUAGCGAGCAUCGAAGGCGACACCAGGCUACAGGACAAAUGCAGGAUGUGCCAUCGAA
.((((.(..(((..(.((..((((((((((((...)))))).))))))..))..)..)))..).)))).(((.(((((..((............)).)).))))))...... (-35.30 = -35.50 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:43:02 2006