Locus 7681

Sequence ID X_DroMel_CAF1
Location 19,143,458 – 19,143,603
Length 145
Max. P 0.850711
window12603 window12604

overview

Window 3

Location 19,143,458 – 19,143,563
Length 105
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 85.22
Mean single sequence MFE -29.31
Consensus MFE -24.20
Energy contribution -24.87
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -1.56
Structure conservation index 0.83
SVM decision value 0.00
SVM RNA-class probability 0.533799
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19143458 105 + 22224390
CCAUUUACAAUUCGCCGAUAGCUUGAUUACCUGGAAUUUGGCAUUCUCCAUUUUU---------------CAUUUCGAUACUUGCCACCGGGGUACAAAGACCAAGGUGGGUGUGUCGAA
.............(((((...((.(.....).))...))))).............---------------...((((((((...(((((..(((......)))..)))))..)))))))) ( -30.50)
>DroSim_CAF1 13059 105 + 1
CCAUUUACAAUGCGGCGAUAGCUUGAUUACCUGGAAUUUGGCAUUCUCCAUUUUU---------------CAUUUCGAUACUUGCCACCGGGGUACAAAGACCAAGGUGGGUGUGUCGAC
.......(((.((.......)))))......(((((..(((......)))..)))---------------))..(((((((...(((((..(((......)))..)))))..))))))). ( -31.20)
>DroYak_CAF1 8019 120 + 1
CCAUUUACAAUUCGUCGAUAUCUUGAUUACCUGGAAUUGGGCAUUCUUCAUUCUUCAUUUUUCCUUUUUUUAUUUCGAUUCUUGCCACCCGGGUACAAAGACCAAGGUGGGUGUGUCGAC
.............(((((((((((...(((((((.....((((....((...........................))....))))..)))))))..)))(((......))))))))))) ( -26.23)
>consensus
CCAUUUACAAUUCGCCGAUAGCUUGAUUACCUGGAAUUUGGCAUUCUCCAUUUUU_______________CAUUUCGAUACUUGCCACCGGGGUACAAAGACCAAGGUGGGUGUGUCGAC
................((..(((..(((......)))..)))..))............................(((((((...(((((..(((......)))..)))))..))))))). (-24.20 = -24.87 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 19,143,498 – 19,143,603
Length 105
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 82.22
Mean single sequence MFE -31.77
Consensus MFE -28.05
Energy contribution -28.17
Covariance contribution 0.11
Combinations/Pair 1.04
Mean z-score -1.50
Structure conservation index 0.88
SVM decision value 0.79
SVM RNA-class probability 0.850711
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19143498 105 + 22224390
GCAUUCUCCAUUUUU---------------CAUUUCGAUACUUGCCACCGGGGUACAAAGACCAAGGUGGGUGUGUCGAACCGCAAAUAAAACAGCGGCAACAGCAGUUGUGUUUGUCGU
...............---------------...((((((((...(((((..(((......)))..)))))..)))))))).((((((((.(((.(((....).)).))).)))))).)). ( -34.40)
>DroSim_CAF1 13099 103 + 1
GCAUUCUCCAUUUUU---------------CAUUUCGAUACUUGCCACCGGGGUACAAAGACCAAGGUGGGUGUGUCGACCCGCAAAUAAAACAGCGGCAACAGCAGUUA--CUUGUCGU
((.............---------------....(((((((...(((((..(((......)))..)))))..))))))).((((..........)))).....)).....--........ ( -29.90)
>DroYak_CAF1 8059 118 + 1
GCAUUCUUCAUUCUUCAUUUUUCCUUUUUUUAUUUCGAUUCUUGCCACCCGGGUACAAAGACCAAGGUGGGUGUGUCGACACGCAAAUAGAAGAGCGGCAACAGCAGUUU--UUUGCGGU
((.((((((...................................(((((..(((......)))..)))))(((((....))))).....))))))..))....((((...--.))))... ( -31.00)
>consensus
GCAUUCUCCAUUUUU_______________CAUUUCGAUACUUGCCACCGGGGUACAAAGACCAAGGUGGGUGUGUCGACCCGCAAAUAAAACAGCGGCAACAGCAGUUA__UUUGUCGU
((................................(((((((...(((((..(((......)))..)))))..)))))))..(((..........))))).((.((((......)))).)) (-28.05 = -28.17 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:44:59 2006