Locus 4249

Sequence ID 2L_DroMel_CAF1
Location 12,134,119 – 12,134,209
Length 90
Max. P 0.962685
window6708 window6709

overview

Window 8

Location 12,134,119 – 12,134,209
Length 90
Sequences 3
Columns 92
Reading direction forward
Mean pairwise identity 81.62
Mean single sequence MFE -23.73
Consensus MFE -18.82
Energy contribution -18.60
Covariance contribution -0.22
Combinations/Pair 1.07
Mean z-score -2.13
Structure conservation index 0.79
SVM decision value 1.18
SVM RNA-class probability 0.927685
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12134119 90 + 22407834
AUGUGGUGAGAAGCACUCGCUCUCUUGGCAGUAGCGAUUAAGCUUUCAGAGAGAGCUUUUU--UUUACUCAUUUCAAAGUUUAUGCUUUAAC
..(..((((((((.....((((((((......(((......)))....)))))))).....--))).)))))..)(((((....)))))... ( -23.60)
>DroSec_CAF1 14458 90 + 1
AUGUGGUGAGAAGCGCUCGCUCUCUUGGCAGUAGCGAUUAAGCUUUCAGAGAGAGCUUUUUGCUUUACUCAUUUCAAAGUUUAUGCUUAA--
.((..((((((((((...((((((((......(((......)))....))))))))....)))))..)))))..))((((....))))..-- ( -27.90)
>DroSim_CAF1 15495 70 + 1
AAGUGGUGAGAAGCGCUCGCUCUCUUGGCAGUAGCGAUUAAGCUUUCAGAGAGAGCUUUU--------------------UUAUGCUUUA--
..((.(.((((.((....)))))).).))((((..((..((((((((...))))))))..--------------------)).))))...-- ( -19.70)
>consensus
AUGUGGUGAGAAGCGCUCGCUCUCUUGGCAGUAGCGAUUAAGCUUUCAGAGAGAGCUUUUU__UUUACUCAUUUCAAAGUUUAUGCUUUA__
..(((.(....).)))..((((((((......(((......)))....)))))))).................................... (-18.82 = -18.60 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 12,134,119 – 12,134,209
Length 90
Sequences 3
Columns 92
Reading direction reverse
Mean pairwise identity 81.62
Mean single sequence MFE -18.67
Consensus MFE -15.97
Energy contribution -16.30
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -2.13
Structure conservation index 0.86
SVM decision value 1.54
SVM RNA-class probability 0.962685
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12134119 90 - 22407834
GUUAAAGCAUAAACUUUGAAAUGAGUAAA--AAAAAGCUCUCUCUGAAAGCUUAAUCGCUACUGCCAAGAGAGCGAGUGCUUCUCACCACAU
....((((((..((((......))))...--.....(((((((..(..(((......)))....)..)))))))..)))))).......... ( -20.90)
>DroSec_CAF1 14458 90 - 1
--UUAAGCAUAAACUUUGAAAUGAGUAAAGCAAAAAGCUCUCUCUGAAAGCUUAAUCGCUACUGCCAAGAGAGCGAGCGCUUCUCACCACAU
--...................((((..((((.....(((((((..(..(((......)))....)..)))))))....))))))))...... ( -20.00)
>DroSim_CAF1 15495 70 - 1
--UAAAGCAUAA--------------------AAAAGCUCUCUCUGAAAGCUUAAUCGCUACUGCCAAGAGAGCGAGCGCUUCUCACCACUU
--..........--------------------....(((((((..(..(((......)))....)..)))))))(((.....)))....... ( -15.10)
>consensus
__UAAAGCAUAAACUUUGAAAUGAGUAAA__AAAAAGCUCUCUCUGAAAGCUUAAUCGCUACUGCCAAGAGAGCGAGCGCUUCUCACCACAU
....((((....((((......))))..........(((((((..(..(((......)))....)..)))))))....)))).......... (-15.97 = -16.30 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:13:25 2006