Locus 3596

Sequence ID 2L_DroMel_CAF1
Location 10,477,062 – 10,477,182
Length 120
Max. P 0.982653
window5680 window5681

overview

Window 0

Location 10,477,062 – 10,477,182
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 94.58
Mean single sequence MFE -33.80
Consensus MFE -32.38
Energy contribution -32.34
Covariance contribution -0.04
Combinations/Pair 1.11
Mean z-score -1.30
Structure conservation index 0.96
SVM decision value 1.07
SVM RNA-class probability 0.910239
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10477062 120 + 22407834
UCGGCGCGAAUCAGUGGUUCGCGCGCUUAUCGAUAGGCAAUGUUUUGGUUUUGCUUGCUUUCGGCAUAAAAACGUAAUUUUCAUGCGGUUUUUGCGGCAAUUUAGGGACGUUUUUCGUUU
...((((((((.....))))))))(((((....)))))(((((((..(..(((((.((...(.((((.((((.....)))).)))).).....)))))))..)..)))))))........ ( -35.60)
>DroSec_CAF1 5451 120 + 1
UUGGCGCGAAUCAGUGGUUCGCGCGCUUAUCGAUAGGCAAUGUUUUGGUUUUGCUUGCUUUCGGCAUAAAAACGUAAUUUUCAUGCGGUUUUUGCGGCAAUUUAGAGGCGUUUUUCGUUU
...((((((((.....))))))))(((((....)))))((((((((....(((((.((...(.((((.((((.....)))).)))).).....)))))))....))))))))........ ( -35.90)
>DroSim_CAF1 5177 120 + 1
UUGGCGCGAAUCAGUGGUUCGCGCGCUUAUCGAUAGGCAAUGUUUUGGUUUUGCUUGCUUGCGGCAUAAAAACGUAAUUUUCAUGCGGUUUUUGCGGCAAUUUAGAGGCGUUCUUCGUUU
...((((((((.....))))))))(((((....)))))((((((((....(((((.((..((.((((.((((.....)))).)))).))....)))))))....))))))))........ ( -38.00)
>DroEre_CAF1 8241 120 + 1
UUCCAGCGAAUCAGUGGUUCGCUCGCUUAUCGAUAGGCAAUGUUUUGGUUUUGUUUGCUUGCGGCAUAAAAACGUAGUUUUCAUGCGGAUUUUGCGGCAAUUUACAGGCGUUUUUCGUUU
..(((((((((.....))))))..(((((....))))).......)))....(((((.((((.(((.(((..((((.......))))..)))))).))))....)))))........... ( -30.70)
>DroYak_CAF1 5868 120 + 1
UUCCCGCGAAUCAGUGGUUCGCGCGCUUAUCGAUAGGCAAUGUUUUGGUUUUGUUUGCUUUCGGCAUAAAAACGUAGUUUUCAUGCGGUUUUUGCGGCAAUUUAGUGGCGUUUUUCGUUU
....(((((((.....))))))).(((((....)))))((((((...(..(((((.((...(.((((.(((((...))))).)))).).....)))))))..)...))))))........ ( -28.80)
>consensus
UUGGCGCGAAUCAGUGGUUCGCGCGCUUAUCGAUAGGCAAUGUUUUGGUUUUGCUUGCUUUCGGCAUAAAAACGUAAUUUUCAUGCGGUUUUUGCGGCAAUUUAGAGGCGUUUUUCGUUU
...((((((((.....))))))))(((((....)))))((((((((....(((((.((...(.((((.((((.....)))).)))).).....)))))))....))))))))........ (-32.38 = -32.34 +  -0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 10,477,062 – 10,477,182
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 94.58
Mean single sequence MFE -24.82
Consensus MFE -21.64
Energy contribution -21.32
Covariance contribution -0.32
Combinations/Pair 1.11
Mean z-score -1.86
Structure conservation index 0.87
SVM decision value 1.92
SVM RNA-class probability 0.982653
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10477062 120 - 22407834
AAACGAAAAACGUCCCUAAAUUGCCGCAAAAACCGCAUGAAAAUUACGUUUUUAUGCCGAAAGCAAGCAAAACCAAAACAUUGCCUAUCGAUAAGCGCGCGAACCACUGAUUCGCGCCGA
...((....................((.......((((((((((...))))))))))(((..((((..............))))...)))....))(((((((.......))))))))). ( -25.44)
>DroSec_CAF1 5451 120 - 1
AAACGAAAAACGCCUCUAAAUUGCCGCAAAAACCGCAUGAAAAUUACGUUUUUAUGCCGAAAGCAAGCAAAACCAAAACAUUGCCUAUCGAUAAGCGCGCGAACCACUGAUUCGCGCCAA
.........................((.......((((((((((...))))))))))(((..((((..............))))...)))....))(((((((.......)))))))... ( -24.64)
>DroSim_CAF1 5177 120 - 1
AAACGAAGAACGCCUCUAAAUUGCCGCAAAAACCGCAUGAAAAUUACGUUUUUAUGCCGCAAGCAAGCAAAACCAAAACAUUGCCUAUCGAUAAGCGCGCGAACCACUGAUUCGCGCCAA
...((((((.....)))........((((.....((((((((((...)))))))))).((......))............))))...)))....(.(((((((.......)))))))).. ( -25.70)
>DroEre_CAF1 8241 120 - 1
AAACGAAAAACGCCUGUAAAUUGCCGCAAAAUCCGCAUGAAAACUACGUUUUUAUGCCGCAAGCAAACAAAACCAAAACAUUGCCUAUCGAUAAGCGAGCGAACCACUGAUUCGCUGGAA
..........(((.(((..((....((((.....((((((((((...))))))))))(....).................))))..))..))).)))((((((.......)))))).... ( -23.40)
>DroYak_CAF1 5868 120 - 1
AAACGAAAAACGCCACUAAAUUGCCGCAAAAACCGCAUGAAAACUACGUUUUUAUGCCGAAAGCAAACAAAACCAAAACAUUGCCUAUCGAUAAGCGCGCGAACCACUGAUUCGCGGGAA
............((..........(((.......((((((((((...))))))))))(((..((((..............))))...)))....)))((((((.......)))))))).. ( -24.94)
>consensus
AAACGAAAAACGCCUCUAAAUUGCCGCAAAAACCGCAUGAAAAUUACGUUUUUAUGCCGAAAGCAAGCAAAACCAAAACAUUGCCUAUCGAUAAGCGCGCGAACCACUGAUUCGCGCCAA
...(((.....((.........)).((((.....((((((((((...))))))))))(....).................))))...)))......(((((((.......)))))))... (-21.64 = -21.32 +  -0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:56:30 2006