Locus 7748

Sequence ID 3L_DroMel_CAF1
Location 20,666,770 – 20,666,887
Length 117
Max. P 0.761651
window12616 window12617

overview

Window 6

Location 20,666,770 – 20,666,887
Length 117
Sequences 3
Columns 117
Reading direction forward
Mean pairwise identity 92.00
Mean single sequence MFE -28.07
Consensus MFE -23.93
Energy contribution -24.15
Covariance contribution 0.23
Combinations/Pair 1.06
Mean z-score -1.90
Structure conservation index 0.85
SVM decision value 0.07
SVM RNA-class probability 0.571093
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20666770 117 + 23771897
CGUGUAGCGUCGAUUGGAAGCCAAUUCGAUACAUCAGAAAAAAUUGUAUGUUUCUGUCACCGCUGCCAAGUUAUAUGCAAAUUUUGAAUAAUACUUUGCAUACAAUUUGUAAACGUU
(((((((((((((((((...)))).)))))....((((((..........)))))).....)))))((((((.((((((((.............)))))))).))))))...))).. ( -28.62)
>DroSec_CAF1 38725 116 + 1
UAUGUGGCGUCAAUUGGAAGCCAAUUCGAUACAUCAGAAAAAAUGGUAUGUUUCUGUCACCGCUGCCAAGUUGAAUGCAAAUUUUAAAUA-UGCUUUGCAUACAAUUUGUAUUCGUU
....(((((((((((((...)))))).)))....((((((..........))))))........))))....(((((((((((.....((-(((...))))).)))))))))))... ( -26.80)
>DroSim_CAF1 44094 116 + 1
CAUGUGGCGUCAAUUGGAAGCCAAUUCGAUACAUGAGAAAAAAUUUUAUGUUUCUGUCACCGCUGCCAAGUUGAAUGCAAAUUUUGAAUA-UGCUUUGCAUACAAUUUGUAUUCGUU
...(..(((..((((((...)))))).((.((((((((.....)))))))).))......)))..)......(((((((((((.....((-(((...))))).)))))))))))... ( -28.80)
>consensus
CAUGUGGCGUCAAUUGGAAGCCAAUUCGAUACAUCAGAAAAAAUUGUAUGUUUCUGUCACCGCUGCCAAGUUGAAUGCAAAUUUUGAAUA_UGCUUUGCAUACAAUUUGUAUUCGUU
...((((((((((((((...)))))).)))....((((((..........)))))).....)))))(((((((.(((((((.............))))))).)))))))........ (-23.93 = -24.15 +   0.23)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 20,666,770 – 20,666,887
Length 117
Sequences 3
Columns 117
Reading direction reverse
Mean pairwise identity 92.00
Mean single sequence MFE -27.81
Consensus MFE -22.15
Energy contribution -21.82
Covariance contribution -0.33
Combinations/Pair 1.09
Mean z-score -2.62
Structure conservation index 0.80
SVM decision value 0.50
SVM RNA-class probability 0.761651
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20666770 117 - 23771897
AACGUUUACAAAUUGUAUGCAAAGUAUUAUUCAAAAUUUGCAUAUAACUUGGCAGCGGUGACAGAAACAUACAAUUUUUUCUGAUGUAUCGAAUUGGCUUCCAAUCGACGCUACACG
..((((..(((.(((((((((((.............))))))))))).)))..))))(((.((((((.(......).))))))..(..((((.((((...))))))))..)..))). ( -31.52)
>DroSec_CAF1 38725 116 - 1
AACGAAUACAAAUUGUAUGCAAAGCA-UAUUUAAAAUUUGCAUUCAACUUGGCAGCGGUGACAGAAACAUACCAUUUUUUCUGAUGUAUCGAAUUGGCUUCCAAUUGACGCCACAUA
...((((.((((((((((((...)))-)))....)))))).))))....((((..(((((.((((((.(......).))))))...)))))((((((...))))))...)))).... ( -27.50)
>DroSim_CAF1 44094 116 - 1
AACGAAUACAAAUUGUAUGCAAAGCA-UAUUCAAAAUUUGCAUUCAACUUGGCAGCGGUGACAGAAACAUAAAAUUUUUUCUCAUGUAUCGAAUUGGCUUCCAAUUGACGCCACAUG
...((((.((((((((((((...)))-)))....)))))).))))....((((..(((((..(((((.(......).)))))....)))))((((((...))))))...)))).... ( -24.40)
>consensus
AACGAAUACAAAUUGUAUGCAAAGCA_UAUUCAAAAUUUGCAUUCAACUUGGCAGCGGUGACAGAAACAUACAAUUUUUUCUGAUGUAUCGAAUUGGCUUCCAAUUGACGCCACAUG
..((....(((.(((.(((((((.............))))))).))).)))....))(((.((((((.(......).))))))..(..((((.((((...))))))))..))))... (-22.15 = -21.82 +  -0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:55:55 2006