Locus 5080

Sequence ID 2R_DroMel_CAF1
Location 16,507,297 – 16,507,400
Length 103
Max. P 0.639939
window8120 window8121

overview

Window 0

Location 16,507,297 – 16,507,400
Length 103
Sequences 3
Columns 108
Reading direction forward
Mean pairwise identity 92.59
Mean single sequence MFE -19.07
Consensus MFE -13.87
Energy contribution -14.20
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -2.58
Structure conservation index 0.73
SVM decision value -0.05
SVM RNA-class probability 0.508616
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16507297 103 + 20766785
ACUAAA-----ACGAAAGAUAUUAUAAAACAAUGUCAUGAACAACUGUUAAGUGAAACAAUGAACUUUUGUAACAAUAUCUAUCAGCGACGUUUAUUAUCUUGCAAAA
......-----..((.(((((((.....((((..((((.....(((....)))......))))....))))...))))))).)).((((.((.....)).)))).... ( -15.80)
>DroSec_CAF1 4278 108 + 1
ACUAUAAAUACACGAUAGAUAUUAUUAAACAAUGUCAUGAACAACUGUUAAGUGAAACAAUAAACUUUUGUAACAAUAUCUAUCAGUGCUGUUUAUUAUCUUGCAAAA
...((((((((((((((((((((...........((((.(((....)))..)))).((((.......))))...)))))))))).))).)))))))............ ( -20.70)
>DroSim_CAF1 4565 108 + 1
ACUAUAAAUACACGAUAGAUAUUAUAAAACAAUGUCAUGAACAACUGUUAAGUGAAACAAUAAACUUUUGUAACAAUAUCUAUCAGUGCUGUUUAUUAUCUUGCAAAA
...((((((((((((((((((((...........((((.(((....)))..)))).((((.......))))...)))))))))).))).)))))))............ ( -20.70)
>consensus
ACUAUAAAUACACGAUAGAUAUUAUAAAACAAUGUCAUGAACAACUGUUAAGUGAAACAAUAAACUUUUGUAACAAUAUCUAUCAGUGCUGUUUAUUAUCUUGCAAAA
.............((((((((((...........((((.(((....)))..)))).((((.......))))...))))))))))........................ (-13.87 = -14.20 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 16,507,297 – 16,507,400
Length 103
Sequences 3
Columns 108
Reading direction reverse
Mean pairwise identity 92.59
Mean single sequence MFE -20.30
Consensus MFE -19.05
Energy contribution -19.83
Covariance contribution 0.78
Combinations/Pair 1.03
Mean z-score -1.59
Structure conservation index 0.94
SVM decision value 0.22
SVM RNA-class probability 0.639939
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16507297 103 - 20766785
UUUUGCAAGAUAAUAAACGUCGCUGAUAGAUAUUGUUACAAAAGUUCAUUGUUUCACUUAACAGUUGUUCAUGACAUUGUUUUAUAAUAUCUUUCGU-----UUUAGU
........(((.......)))...((.(((((((((.((((......((((((......))))))((((...))))))))...))))))))).))..-----...... ( -14.70)
>DroSec_CAF1 4278 108 - 1
UUUUGCAAGAUAAUAAACAGCACUGAUAGAUAUUGUUACAAAAGUUUAUUGUUUCACUUAACAGUUGUUCAUGACAUUGUUUAAUAAUAUCUAUCGUGUAUUUAUAGU
............(((((..((((.(((((((((((((((((......((((((......))))))((((...))))))))..))))))))))))))))).)))))... ( -23.00)
>DroSim_CAF1 4565 108 - 1
UUUUGCAAGAUAAUAAACAGCACUGAUAGAUAUUGUUACAAAAGUUUAUUGUUUCACUUAACAGUUGUUCAUGACAUUGUUUUAUAAUAUCUAUCGUGUAUUUAUAGU
............(((((..((((.((((((((((((.((((......((((((......))))))((((...))))))))...)))))))))))))))).)))))... ( -23.20)
>consensus
UUUUGCAAGAUAAUAAACAGCACUGAUAGAUAUUGUUACAAAAGUUUAUUGUUUCACUUAACAGUUGUUCAUGACAUUGUUUUAUAAUAUCUAUCGUGUAUUUAUAGU
...................((((.((((((((((((.((((......((((((......))))))((((...))))))))...))))))))))))))))......... (-19.05 = -19.83 +   0.78)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:36:00 2006