Locus 6671

Sequence ID X_DroMel_CAF1
Location 16,661,085 – 16,661,185
Length 100
Max. P 0.943551
window10893 window10894

overview

Window 3

Location 16,661,085 – 16,661,185
Length 100
Sequences 3
Columns 109
Reading direction forward
Mean pairwise identity 82.33
Mean single sequence MFE -25.75
Consensus MFE -17.27
Energy contribution -17.61
Covariance contribution 0.34
Combinations/Pair 1.07
Mean z-score -2.02
Structure conservation index 0.67
SVM decision value 0.43
SVM RNA-class probability 0.732589
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16661085 100 + 22224390
UUAUAAUAAGACAUACGGAUAUAUGGCGGUAUUCAGCUAAAUGCUCUGGGAACUUUC---------GAAAACACCAGAGUUUCCAGAACACCACUUAUCGAUGUCGUUG
.........(((((...((((..(((.((((((......)))))((((((((((((.---------(......).)))))))))))).).)))..)))).))))).... ( -30.10)
>DroEre_CAF1 20051 99 + 1
UUAUAAUA-GAUAUACGGAUAUAUGGCGAUAUUCAGCUGAAUGCUCUGGGAAUUUUC---------GAAAGCACCAGAGUUUCCAGAAUACCACUUAUCGCAAUCGUAG
........-....(((((.......((((((....((.....))(((((((((((((---------....)....))))))))))))........))))))..))))). ( -24.40)
>DroYak_CAF1 19793 108 + 1
UUAUAAUU-GAUAUACGGAUAUAUGGCGGUAUUCAGCUGAAUGAUCUGGGUUUUUUCUUUCGGAAAAAAAACAACAGAGUUUCCAGAUUACCACCUAUCGAAAUCGUAG
........-....(((((......((.(((((((....))))(((((((((((((((.....)))))))(((......)))))))))))))).))........))))). ( -22.74)
>consensus
UUAUAAUA_GAUAUACGGAUAUAUGGCGGUAUUCAGCUGAAUGCUCUGGGAAUUUUC_________GAAAACACCAGAGUUUCCAGAAUACCACUUAUCGAAAUCGUAG
.........(((.....((((..(((...(((((....))))).((((((((((((...................))))))))))))...)))..))))...))).... (-17.27 = -17.61 +   0.34)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 16,661,085 – 16,661,185
Length 100
Sequences 3
Columns 109
Reading direction reverse
Mean pairwise identity 82.33
Mean single sequence MFE -25.57
Consensus MFE -20.47
Energy contribution -20.70
Covariance contribution 0.23
Combinations/Pair 1.18
Mean z-score -2.31
Structure conservation index 0.80
SVM decision value 1.34
SVM RNA-class probability 0.943551
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16661085 100 - 22224390
CAACGACAUCGAUAAGUGGUGUUCUGGAAACUCUGGUGUUUUC---------GAAAGUUCCCAGAGCAUUUAGCUGAAUACCGCCAUAUAUCCGUAUGUCUUAUUAUAA
....((((((((((.(((((((((..(((.((((((.(....(---------....)..)))))))..)))....)))))))))....))).)).)))))......... ( -29.30)
>DroEre_CAF1 20051 99 - 1
CUACGAUUGCGAUAAGUGGUAUUCUGGAAACUCUGGUGCUUUC---------GAAAAUUCCCAGAGCAUUCAGCUGAAUAUCGCCAUAUAUCCGUAUAUC-UAUUAUAA
....((((((((((.(((((((((((((..((((((.(..((.---------...))..)))))))..))))...)))))))))....))).)))).)))-........ ( -23.00)
>DroYak_CAF1 19793 108 - 1
CUACGAUUUCGAUAGGUGGUAAUCUGGAAACUCUGUUGUUUUUUUUCCGAAAGAAAAAACCCAGAUCAUUCAGCUGAAUACCGCCAUAUAUCCGUAUAUC-AAUUAUAA
....(((..((((((((((((..(((((...((((..(((((((((.....))))))))).))))...))))).....)))))))...))).))...)))-........ ( -24.40)
>consensus
CUACGAUUUCGAUAAGUGGUAUUCUGGAAACUCUGGUGUUUUC_________GAAAAUUCCCAGAGCAUUCAGCUGAAUACCGCCAUAUAUCCGUAUAUC_UAUUAUAA
....(((..(((((.(((((((((((((..((((((..(((((((.....)))))))...))))))..))))...)))))))))....))).))...)))......... (-20.47 = -20.70 +   0.23)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:19:40 2006