Locus 4078

Sequence ID X_DroMel_CAF1
Location 10,779,139 – 10,779,347
Length 208
Max. P 0.739792
window6705 window6706

overview

Window 5

Location 10,779,139 – 10,779,238
Length 99
Sequences 3
Columns 105
Reading direction reverse
Mean pairwise identity 79.37
Mean single sequence MFE -11.31
Consensus MFE -9.89
Energy contribution -10.57
Covariance contribution 0.67
Combinations/Pair 1.24
Mean z-score -0.79
Structure conservation index 0.87
SVM decision value 0.14
SVM RNA-class probability 0.602768
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10779139 99 - 22224390
------AACCAACUACUGGCAUCCUUAAACUGCAAUGCCUACUUUCAAUUGAAAAUUAUACUUAAGCUUCAAAACUAAUGUAUCUGUAGUUUGAUUUUGGGCUUC
------..((((.....((...))((((((((((((((..........(((((..(((....)))..))))).......)))).))))))))))..))))..... ( -15.73)
>DroSec_CAF1 28665 104 - 1
AACCAUAACGAAAUACUAACAUCCUCAAACUACAAUGCCUGUUAUCA-ACGAUAAUUCUACUUAAACUUCAAAACUACUGUUUCUGUAGUUUAAUAAUGAAUUUU
...................(((..(.((((((((......((((((.-..))))))...............((((....)))).)))))))).)..)))...... ( -10.10)
>DroSim_CAF1 27332 105 - 1
AACCAUAACGAAAUACUGACAUCCUUAAACUACAAUGCCUGUUCUCAAACGAUAACUCUACUUAAACUUCAAAACUACUGUAUCUGUUGUUUAAUAAUGAAUUUU
...................(((..((((((.(((((((..(((....)))((....)).....................)))).))).))))))..)))...... (  -8.10)
>consensus
AACCAUAACGAAAUACUGACAUCCUUAAACUACAAUGCCUGUUAUCAAACGAUAAUUCUACUUAAACUUCAAAACUACUGUAUCUGUAGUUUAAUAAUGAAUUUU
...................(((..((((((((((......((((((....)))))).................((....))...))))))))))..)))...... ( -9.89 = -10.57 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 10,779,238 – 10,779,347
Length 109
Sequences 3
Columns 111
Reading direction reverse
Mean pairwise identity 93.39
Mean single sequence MFE -28.11
Consensus MFE -27.86
Energy contribution -27.75
Covariance contribution -0.11
Combinations/Pair 1.07
Mean z-score -1.49
Structure conservation index 0.99
SVM decision value 0.45
SVM RNA-class probability 0.739792
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10779238 109 - 22224390
UUUUGCGUCUAUGCGUUGCUGCCGCACCCGCAACAUUGAUUGCUGCAACAAGGGACGCCAGAUGCACUGAGGGAAAAUAUAAAUUAAUUCCAAAGAAUCUCAUUUCAUC--
...(((((((..(((((.((...(((...((((......)))))))....)).))))).)))))))((...((((............))))..))..............-- ( -26.10)
>DroSec_CAF1 28769 111 - 1
UUUUGCGUCUAUGCGUUGCUGCCGCACCCGCAACAUUGGUUGCUGCAACAAGGGACGCCAGAUGCACUGAGGAAAAAUAUUAAUUAAUUCCAAAGAAUCUCACAAAAUCAU
...(((((((..(((((.((...(((...(((((....))))))))....)).))))).)))))))((..((((.............))))..))................ ( -29.12)
>DroSim_CAF1 27437 111 - 1
UUUUGCGUCUAUGCGUUGCUGCCGCACCCGCAACAUUGGUUGCUGCAACAAGGGACGCCAGAUGCACUGAGGAAAAAUAUAAAUUAAUUCCAAGGAAUCUCAUUUAACCAU
...(((((((..(((((.((...(((...(((((....))))))))....)).))))).)))))))((..((((.............))))..))................ ( -29.12)
>consensus
UUUUGCGUCUAUGCGUUGCUGCCGCACCCGCAACAUUGGUUGCUGCAACAAGGGACGCCAGAUGCACUGAGGAAAAAUAUAAAUUAAUUCCAAAGAAUCUCAUUUAAUCAU
...(((((((..(((((.((...(((...(((((....))))))))....)).))))).)))))))((..((((.............))))..))................ (-27.86 = -27.75 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:15:51 2006