Locus 4441

Sequence ID 3L_DroMel_CAF1
Location 12,947,172 – 12,947,292
Length 120
Max. P 0.670992
window6895

overview

Window 5

Location 12,947,172 – 12,947,292
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 90.00
Mean single sequence MFE -33.14
Consensus MFE -28.66
Energy contribution -28.82
Covariance contribution 0.16
Combinations/Pair 1.18
Mean z-score -1.36
Structure conservation index 0.86
SVM decision value 0.29
SVM RNA-class probability 0.670992
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12947172 120 - 23771897
CCUUUGAACCCUUGAUACCCUUUAUCAACGAGCUUACAAACUGAGUGGCUGCAAAGGCCAUCGAUAGGGUGGCCGAGCCCAGGCCAUCCUUGGCAUUAACCACUUCUGUGCCCGCAUUUU
((((((...((((((((.....))))))...(((((.....)))))))...))))))........(((((((((.......))))))))).(((((...........)))))........ ( -34.90)
>DroSec_CAF1 64428 120 - 1
CCUUCGAACCCUUGAUACCCUUUAUCAACGAGCUUACAAACUGAGCGGCUGCAUAGGCCAUCGAUAGGGUGGCCGAUCCCAGGCCAUCCUUGGCAUUAACUACCUCUGUGCCCGCAUUUU
...((((..(.((((((.....)))))).).(((((.....)))))((((.....)))).)))).(((((((((.......))))))))).(((((...........)))))........ ( -37.80)
>DroSim_CAF1 68780 120 - 1
CCUUCGAACCCUUGAUACCCUUUAUCAACGAGCUUACAAACUGAGCGGCUGCAUAGGCCAUCGAUAGGGUGGCCGAUCCCAGGCCAUCCUUUGCAUUAACUACCUCUGUGCCCGCAUUUU
...((((..(.((((((.....)))))).).(((((.....)))))((((.....)))).)))).(((((((((.......))))))))).(((....((.......))....))).... ( -34.80)
>DroEre_CAF1 70494 120 - 1
CCUUCGAGCCCUUGAUUCCCCUGAUCAAUGCGUUUAUGAAAUGAGAGGCUGCAAAAGCCAUUGAUAGGGUGGCCGAUCCCAGACCAUCCUUGGCAUUAACCACCUCUGUGCCCGCGUUCU
.....((((..((((((.....)))))).(((..............((((.....))))....(((((((((..(((.((((.......)))).)))..))))).))))...))))))). ( -31.70)
>DroYak_CAF1 68152 120 - 1
CCUCCGAACCCUUGAUACCCUUUAUCAAUGAGUUUACAAAACGAGCUGCUGCAAAAGCCAUCGAUAGGGUGGCCGAUCCCAGUCCAUCCUUGGCAUUAACUACCUCUGUGCCCGCGUUUU
.....(((((.((((((.....)))))).).))))..((((((.((....))....((((.....(((((((.(.......).)))))))))))....................)))))) ( -26.50)
>consensus
CCUUCGAACCCUUGAUACCCUUUAUCAACGAGCUUACAAACUGAGCGGCUGCAAAGGCCAUCGAUAGGGUGGCCGAUCCCAGGCCAUCCUUGGCAUUAACUACCUCUGUGCCCGCAUUUU
...((((..(.((((((.....)))))).).(((((.....)))))((((.....)))).)))).(((((((((.......))))))))).(((((...........)))))........ (-28.66 = -28.82 +   0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:22:52 2006