Locus 5813

Sequence ID 2L_DroMel_CAF1
Location 16,482,436 – 16,482,526
Length 90
Max. P 0.983736
window9227 window9228

overview

Window 7

Location 16,482,436 – 16,482,526
Length 90
Sequences 4
Columns 90
Reading direction forward
Mean pairwise identity 94.44
Mean single sequence MFE -32.77
Consensus MFE -28.94
Energy contribution -28.75
Covariance contribution -0.19
Combinations/Pair 1.05
Mean z-score -3.10
Structure conservation index 0.88
SVM decision value 1.88
SVM RNA-class probability 0.981049
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16482436 90 + 22407834
CGAGCGAGCGAGAAAGCAGCAUAUUUGCAUAGCCAGUCGUACAUGUUUGCGCUCUCGCUCGCCCCCAUGGGCGACGCCUUAUAUAAACAA
...((((((((((..((((.((((.(((..........))).))))))))..))))))))((((....))))...))............. ( -31.20)
>DroSec_CAF1 107401 90 + 1
CGAGCGAGCGAGAAAGCAGCAUAUUUGCAUAGCCAGUCGUACAUGUUUGCGCUCUCGCUCGCCCCCAUGGGCGACGCCUUAUAUAAACAA
...((((((((((..((((.((((.(((..........))).))))))))..))))))))((((....))))...))............. ( -31.20)
>DroSim_CAF1 104708 90 + 1
CGAGCGAGCGAGAAAGCAGCAUAUUUGCAUAGCCAGUCGUACAUGUUUGCGCUCUCGCUCGCCCCCAUGGGCGACGCCUUAUAUAAACAA
...((((((((((..((((.((((.(((..........))).))))))))..))))))))((((....))))...))............. ( -31.20)
>DroYak_CAF1 109389 86 + 1
UGAGCGAGCGAGAGAGCAGCAUAUUUGCAUAGCCAGUA----UUGUUUGCGCUCUCGCUCGCUCCCAUGGGCAACGCCUUAUAUAAACAA
.(((((((((((((.((((((((((.((...)).))))----.)).)))).)))))))))))))....((((...))))........... ( -37.50)
>consensus
CGAGCGAGCGAGAAAGCAGCAUAUUUGCAUAGCCAGUCGUACAUGUUUGCGCUCUCGCUCGCCCCCAUGGGCGACGCCUUAUAUAAACAA
...((((((((((..((((((....))).....((........))..)))..))))))))((((....))))...))............. (-28.94 = -28.75 +  -0.19)

alignment

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secondary structure

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dotplot

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Window 8

Location 16,482,436 – 16,482,526
Length 90
Sequences 4
Columns 90
Reading direction reverse
Mean pairwise identity 94.44
Mean single sequence MFE -32.17
Consensus MFE -32.40
Energy contribution -32.02
Covariance contribution -0.38
Combinations/Pair 1.08
Mean z-score -2.14
Structure conservation index 1.01
SVM decision value 1.95
SVM RNA-class probability 0.983736
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16482436 90 - 22407834
UUGUUUAUAUAAGGCGUCGCCCAUGGGGGCGAGCGAGAGCGCAAACAUGUACGACUGGCUAUGCAAAUAUGCUGCUUUCUCGCUCGCUCG
............(((...))).....(((((((((((((.(((..(((((................))))).))).))))))))))))). ( -31.29)
>DroSec_CAF1 107401 90 - 1
UUGUUUAUAUAAGGCGUCGCCCAUGGGGGCGAGCGAGAGCGCAAACAUGUACGACUGGCUAUGCAAAUAUGCUGCUUUCUCGCUCGCUCG
............(((...))).....(((((((((((((.(((..(((((................))))).))).))))))))))))). ( -31.29)
>DroSim_CAF1 104708 90 - 1
UUGUUUAUAUAAGGCGUCGCCCAUGGGGGCGAGCGAGAGCGCAAACAUGUACGACUGGCUAUGCAAAUAUGCUGCUUUCUCGCUCGCUCG
............(((...))).....(((((((((((((.(((..(((((................))))).))).))))))))))))). ( -31.29)
>DroYak_CAF1 109389 86 - 1
UUGUUUAUAUAAGGCGUUGCCCAUGGGAGCGAGCGAGAGCGCAAACAA----UACUGGCUAUGCAAAUAUGCUGCUCUCUCGCUCGCUCA
............(((...))).....(((((((((((((.(((..((.----...)).....(((....)))))).))))))))))))). ( -34.80)
>consensus
UUGUUUAUAUAAGGCGUCGCCCAUGGGGGCGAGCGAGAGCGCAAACAUGUACGACUGGCUAUGCAAAUAUGCUGCUUUCUCGCUCGCUCG
............(((...))).....(((((((((((((.(((..((........)).....(((....)))))).))))))))))))). (-32.40 = -32.02 +  -0.38)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:53:40 2006