Locus 6129

Sequence ID 3R_DroMel_CAF1
Location 16,058,225 – 16,058,317
Length 92
Max. P 0.993989
window9991 window9992

overview

Window 1

Location 16,058,225 – 16,058,317
Length 92
Sequences 4
Columns 106
Reading direction forward
Mean pairwise identity 90.91
Mean single sequence MFE -19.75
Consensus MFE -17.00
Energy contribution -17.00
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.86
Structure conservation index 0.86
SVM decision value 0.90
SVM RNA-class probability 0.876919
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16058225 92 + 27905053
AUAUAAUAAAAAUAAGGCAGCAAACAAAAGGCGAACGCGAGGUGCCUGUUAAGCACCCCAAGCAGGGCCAAAAUAAUAUA--UAUGUGG------------UGAAA
...............(((.((.........((....))(.(((((.......))))).)..))...)))...........--.......------------..... ( -17.00)
>DroSec_CAF1 18093 92 + 1
AUAUAAUAAAAAUAAGGCAGCAAACAAAAGGCGAACGCGAGGUGCCUGUUAAGCACCCCAAGCAGGGCCAAAAUAAUAUA--UAUAUGG------------UGAAA
...............(((.((.........((....))(.(((((.......))))).)..))...)))...........--.......------------..... ( -17.00)
>DroSim_CAF1 16637 94 + 1
AUAUAAUAAAAAUAAGGCAGCAAACAAAAGGCGAACGCGAGGUGCCUGUUAAGCACCCCAAGCAGGGCCAAAAUAAUAUAUAUAUAUGG------------UGAAA
...............(((.((.........((....))(.(((((.......))))).)..))...)))....................------------..... ( -17.00)
>DroYak_CAF1 24744 104 + 1
AUAUAAUAAAAAUAAGGCGGCAAACAAAAGGCGAACGCGAGGUGCCUGUUAAGCACCCCAAGCAGGGCCAAAAAUAUAUA--UAUAUGGUGGCCUGAUGGGUGAAA
..............(((((.(...(....)((....))..).)))))......(((((......((((((...((((...--.))))..))))))...)))))... ( -28.00)
>consensus
AUAUAAUAAAAAUAAGGCAGCAAACAAAAGGCGAACGCGAGGUGCCUGUUAAGCACCCCAAGCAGGGCCAAAAUAAUAUA__UAUAUGG____________UGAAA
...............(((.((.........((....))(.(((((.......))))).)..))...)))..................................... (-17.00 = -17.00 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 16,058,225 – 16,058,317
Length 92
Sequences 4
Columns 106
Reading direction reverse
Mean pairwise identity 90.91
Mean single sequence MFE -21.65
Consensus MFE -20.10
Energy contribution -20.10
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -2.58
Structure conservation index 0.93
SVM decision value 2.44
SVM RNA-class probability 0.993989
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16058225 92 - 27905053
UUUCA------------CCACAUA--UAUAUUAUUUUGGCCCUGCUUGGGGUGCUUAACAGGCACCUCGCGUUCGCCUUUUGUUUGCUGCCUUAUUUUUAUUAUAU
.....------------....(((--((.........(((...((..((((((((.....))))))))((....)).........)).)))..........))))) ( -20.61)
>DroSec_CAF1 18093 92 - 1
UUUCA------------CCAUAUA--UAUAUUAUUUUGGCCCUGCUUGGGGUGCUUAACAGGCACCUCGCGUUCGCCUUUUGUUUGCUGCCUUAUUUUUAUUAUAU
.....------------..(((((--.(((.......(((...((..((((((((.....))))))))((....)).........)).))).......)))))))) ( -20.94)
>DroSim_CAF1 16637 94 - 1
UUUCA------------CCAUAUAUAUAUAUUAUUUUGGCCCUGCUUGGGGUGCUUAACAGGCACCUCGCGUUCGCCUUUUGUUUGCUGCCUUAUUUUUAUUAUAU
.....------------....(((((.(((.......(((...((..((((((((.....))))))))((....)).........)).))).......)))))))) ( -20.84)
>DroYak_CAF1 24744 104 - 1
UUUCACCCAUCAGGCCACCAUAUA--UAUAUAUUUUUGGCCCUGCUUGGGGUGCUUAACAGGCACCUCGCGUUCGCCUUUUGUUUGCCGCCUUAUUUUUAUUAUAU
............(((((..((((.--...))))...)))))..((..((((((((.....))))))))(((..((.....))..))).))................ ( -24.20)
>consensus
UUUCA____________CCAUAUA__UAUAUUAUUUUGGCCCUGCUUGGGGUGCUUAACAGGCACCUCGCGUUCGCCUUUUGUUUGCUGCCUUAUUUUUAUUAUAU
.....................................(((...((.(((((((((.....))))))))).))..)))............................. (-20.10 = -20.10 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:13:25 2006