Locus 6235

Sequence ID 3R_DroMel_CAF1
Location 16,289,661 – 16,289,779
Length 118
Max. P 0.792012
window10170 window10171

overview

Window 0

Location 16,289,661 – 16,289,779
Length 118
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 96.11
Mean single sequence MFE -28.70
Consensus MFE -26.67
Energy contribution -27.33
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -1.63
Structure conservation index 0.93
SVM decision value 0.05
SVM RNA-class probability 0.558419
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16289661 118 + 27905053
CGCAAUAUAAUUAAGAUAAACAUAAUUAUAGUUUGCCGUUAUGUGUUGGUUUUUACCACAGCCAUUCAGGCAUUCUAAUCGCAAA--AGUCUGGCGAUUGAAGGGCGAUUAAAGUUAUGC
.(((.((((((((.(.....).))))))))(..((((...(((.((((((....))))..)))))...))))..)(((((((...--((((....)))).....)))))))......))) ( -28.10)
>DroSec_CAF1 10289 120 + 1
CGCAAUAUAAUUAAGAUAAACAUAAUAAUAGUUUGCCGUUAUGUGUUGGUUUUUACCACAGCCAUUCAGGCAUUCUAAUCGCAAAAAUGUCUGGCGAUUGAAGCGCGAUUAAAGUUAUGC
....................((((((....(..((((...(((.((((((....))))..)))))...))))..)(((((((......(((....)))......)))))))..)))))). ( -25.90)
>DroSim_CAF1 2415 120 + 1
CGCAAUAUAAUUAAGAUAAACAUAAUUAUAGUUUGCCGUUAUGUGUUGGUUUUUACCACAGCCAUUCAGGCAUUCUAAUCGCGAAAAAGUCUGGUGAUUGAAGCGCGAUUAAAGUUAUGC
.(((.((((((((.(.....).))))))))(..((((...(((.((((((....))))..)))))...))))..)((((((((....((((....))))....))))))))......))) ( -32.10)
>consensus
CGCAAUAUAAUUAAGAUAAACAUAAUUAUAGUUUGCCGUUAUGUGUUGGUUUUUACCACAGCCAUUCAGGCAUUCUAAUCGCAAAAAAGUCUGGCGAUUGAAGCGCGAUUAAAGUUAUGC
....................(((((((...(..((((...(((.((((((....))))..)))))...))))..)(((((((.....((((....)))).....))))))).))))))). (-26.67 = -27.33 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 16,289,661 – 16,289,779
Length 118
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 96.11
Mean single sequence MFE -25.73
Consensus MFE -25.21
Energy contribution -25.77
Covariance contribution 0.56
Combinations/Pair 1.03
Mean z-score -1.73
Structure conservation index 0.98
SVM decision value 0.59
SVM RNA-class probability 0.792012
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16289661 118 - 27905053
GCAUAACUUUAAUCGCCCUUCAAUCGCCAGACU--UUUGCGAUUAGAAUGCCUGAAUGGCUGUGGUAAAAACCAACACAUAACGGCAAACUAUAAUUAUGUUUAUCUUAAUUAUAUUGCG
(((....(((((((((.......((....))..--...))))))))).((((...(((....((((....))))...)))...))))...((((((((.(.....).)))))))).))). ( -25.00)
>DroSec_CAF1 10289 120 - 1
GCAUAACUUUAAUCGCGCUUCAAUCGCCAGACAUUUUUGCGAUUAGAAUGCCUGAAUGGCUGUGGUAAAAACCAACACAUAACGGCAAACUAUUAUUAUGUUUAUCUUAAUUAUAUUGCG
((((((.((((((((((......((....))......)))))))))).((((...(((....((((....))))...)))...))))........))))))................... ( -24.50)
>DroSim_CAF1 2415 120 - 1
GCAUAACUUUAAUCGCGCUUCAAUCACCAGACUUUUUCGCGAUUAGAAUGCCUGAAUGGCUGUGGUAAAAACCAACACAUAACGGCAAACUAUAAUUAUGUUUAUCUUAAUUAUAUUGCG
(((....((((((((((......((....))......)))))))))).((((...(((....((((....))))...)))...))))...((((((((.(.....).)))))))).))). ( -27.70)
>consensus
GCAUAACUUUAAUCGCGCUUCAAUCGCCAGACUUUUUUGCGAUUAGAAUGCCUGAAUGGCUGUGGUAAAAACCAACACAUAACGGCAAACUAUAAUUAUGUUUAUCUUAAUUAUAUUGCG
(((....((((((((((......((....))......)))))))))).((((...(((....((((....))))...)))...))))...((((((((.(.....).)))))))).))). (-25.21 = -25.77 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:16:19 2006