Locus 8405

Sequence ID 3L_DroMel_CAF1
Location 22,096,453 – 22,096,552
Length 99
Max. P 0.988467
window13744 window13745

overview

Window 4

Location 22,096,453 – 22,096,552
Length 99
Sequences 3
Columns 116
Reading direction forward
Mean pairwise identity 69.18
Mean single sequence MFE -19.27
Consensus MFE -10.17
Energy contribution -10.50
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -2.22
Structure conservation index 0.53
SVM decision value 2.12
SVM RNA-class probability 0.988467
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22096453 99 + 23771897
CCAGGACUCUCUUUCUGCUGCUUCUGCACAGCAAGAAAACCUUGGUUCAAAGC-----AAGU------------UAUAUCAAAAUUGCAAUGCUAAUAAAACAAUGUUAUUAAUAU
(((((....((((.(((.(((....)))))).))))....)))))......((-----((..------------..........)))).....((((((.......)))))).... ( -17.50)
>DroSim_CAF1 88889 94 + 1
CCAGGACUCUCUUUCUGCUGCUCCUGCACAGCAAGAAAACCUUGCUUCAAAGC-----AAGU------------UAUAU----AUUAUUAUA-UAACACAGCAAGAUCACUUUUAA
.............(((((((....(((..((((((.....)))))).....))-----).((------------(((((----(....))))-)))).)))).))).......... ( -21.60)
>DroYak_CAF1 100349 116 + 1
CCAGGACUCUCUUUCUGCUGCUGCUGCACAGUAAGAAAAACUUACUGAAACUCAAAACAAAGUUUAAUUUGGCUUAUAUCGAAAGUACAAUAUUAACAAAACCAAGUUAUUAUUAU
..........(((((.((....)).((.(((((((.....)))))))..........((((......)))))).......)))))...((((.((((........)))).)))).. ( -18.70)
>consensus
CCAGGACUCUCUUUCUGCUGCUCCUGCACAGCAAGAAAACCUUGCUUCAAAGC_____AAGU____________UAUAUC_AAAUUACAAUA_UAACAAAACAAAGUUAUUAUUAU
.((((....((((.(((.(((....)))))).))))....))))........................................................................ (-10.17 = -10.50 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 22,096,453 – 22,096,552
Length 99
Sequences 3
Columns 116
Reading direction reverse
Mean pairwise identity 69.18
Mean single sequence MFE -24.63
Consensus MFE -13.15
Energy contribution -12.93
Covariance contribution -0.22
Combinations/Pair 1.07
Mean z-score -1.75
Structure conservation index 0.53
SVM decision value 0.64
SVM RNA-class probability 0.808591
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22096453 99 - 23771897
AUAUUAAUAACAUUGUUUUAUUAGCAUUGCAAUUUUGAUAUA------------ACUU-----GCUUUGAACCAAGGUUUUCUUGCUGUGCAGAAGCAGCAGAAAGAGAGUCCUGG
...(((((((.......)))))))((..((((.((......)------------).))-----))..))..(((.(..((((((.((((((....))).))).))))))..).))) ( -22.10)
>DroSim_CAF1 88889 94 - 1
UUAAAAGUGAUCUUGCUGUGUUA-UAUAAUAAU----AUAUA------------ACUU-----GCUUUGAAGCAAGGUUUUCUUGCUGUGCAGGAGCAGCAGAAAGAGAGUCCUGG
.....((.((((((.((((((((-((((....)----)))))------------)).(-----((((((.((((((.....))))))...)).)))))))))...)))).)))).. ( -27.40)
>DroYak_CAF1 100349 116 - 1
AUAAUAAUAACUUGGUUUUGUUAAUAUUGUACUUUCGAUAUAAGCCAAAUUAAACUUUGUUUUGAGUUUCAGUAAGUUUUUCUUACUGUGCAGCAGCAGCAGAAAGAGAGUCCUGG
.......(((.(((((((.....((((((......))))))))))))).))).(((((.((((..((..(((((((.....))))))).)).((....)).)))).)))))..... ( -24.40)
>consensus
AUAAUAAUAACAUUGUUUUGUUA_UAUUGUAAUUU_GAUAUA____________ACUU_____GCUUUGAAGCAAGGUUUUCUUGCUGUGCAGAAGCAGCAGAAAGAGAGUCCUGG
........................................................................((.(..((((((.((((((....))).))).))))))..).)). (-13.15 = -12.93 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:14:31 2006