Locus 472

Sequence ID 3L_DroMel_CAF1
Location 1,342,499 – 1,342,695
Length 196
Max. P 0.650772
window697 window698

overview

Window 7

Location 1,342,499 – 1,342,615
Length 116
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 87.19
Mean single sequence MFE -36.02
Consensus MFE -24.56
Energy contribution -25.72
Covariance contribution 1.16
Combinations/Pair 1.09
Mean z-score -1.82
Structure conservation index 0.68
SVM decision value 0.01
SVM RNA-class probability 0.536735
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1342499 116 + 23771897
ACAGGAGCAGGAGAUUCUGUGGUUGCUUGCCCCUGCAAGGAAGCAUUUGCGCGUGUCUCCU----GGCUCCCCUCCUUUGGCUACUUUCUCUGGGCUCCUUUCUUCUGACCCCAUCAAAU
...((((((((((((.(((..(.(((((.((.......))))))).)..)).).)))))))----.)))))((......))..........((((.((.........)).))))...... ( -35.70)
>DroSec_CAF1 14751 116 + 1
ACAGGAGCUGGAGAUUCUGUGGUUGCUUGCUCCUUCAAGGGAGCAGUUGCGCGUGUCUACU----GGCUCCCCUCCUUUGGCUACUUUCUCUGGGCUCCUUUCUUCUGACCCCGUCAAAU
..((((((..((((....((((((((((((((((....))))))))..))..(.(((....----))).).........))))))..))))..).)))))......((((...))))... ( -38.30)
>DroSim_CAF1 14761 116 + 1
ACAGGAGCUGGAGAUUCUGUGGUUGCUUGCUCCUCCAAGGGAGCAGUUGCGCGUGUCUCCU----GGCUCCCCUCCUUUGGCUACUUUCUCUGGGCUCCUUUCUUCUGACCCCGUCAAAU
...((((((((((((..((((...(((.((((((....)))))))))..)))).)))))).----)))))).....((((((..........(((.((.........)).))))))))). ( -39.60)
>DroEre_CAF1 15081 111 + 1
ACAGAAGCAGGAGAUUCUGUGGUUGCUUGCCCCUGC-----GGCAGUUGCACGUGCCUCCU----GACUCCCUUCCCUUGGCCACUUUCUCUUGGCUCCUUUCUUCUGACCCCGUCAAAU
.((((((((((((...((((..(((((.((....))-----)))))..))).)...)))))----).............(((((........))))).....))))))............ ( -32.90)
>DroYak_CAF1 15831 115 + 1
ACAGGAGCUGGAGAUCCUGCGGUUGCUUGCCCCUGC-----GGCAGUUGCACGUGCCUCCUAGCUGCCUCCCUUCCCCUGGCCACUUUCUCUUGGCUCCUUUCUUUUGACCCCAUCAAAU
..((((((((((((....(.((((((........))-----(((((((((....)).....)))))))...........)))).)..)))).))))))))....(((((.....))))). ( -33.60)
>consensus
ACAGGAGCUGGAGAUUCUGUGGUUGCUUGCCCCUGCAAGG_AGCAGUUGCGCGUGUCUCCU____GGCUCCCCUCCUUUGGCUACUUUCUCUGGGCUCCUUUCUUCUGACCCCGUCAAAU
..((((((((((((....((((((((.(((..((((......))))..))).))(((........)))...........))))))..)))))).))))))......(((.....)))... (-24.56 = -25.72 +   1.16)

alignment

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secondary structure

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dotplot

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Window 8

Location 1,342,575 – 1,342,695
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 95.17
Mean single sequence MFE -34.58
Consensus MFE -26.82
Energy contribution -27.18
Covariance contribution 0.36
Combinations/Pair 1.03
Mean z-score -1.87
Structure conservation index 0.78
SVM decision value 0.24
SVM RNA-class probability 0.650772
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1342575 120 + 23771897
GCUACUUUCUCUGGGCUCCUUUCUUCUGACCCCAUCAAAUUGACUGCUGCCAAAUGUUUUCCUCGCUGCGCAUUAAGCACACAGUGCUUCAUUUGGCCAAGUACAGUGGAGCAGGGAUAU
.......(((((..(((((.......(((.....))).(((((((...((((((((.......(((((.((.....))...)))))...))))))))..))).))))))))))))))... ( -32.60)
>DroSec_CAF1 14827 120 + 1
GCUACUUUCUCUGGGCUCCUUUCUUCUGACCCCGUCAAAUUGACUGCUGCCAAAUGUUUUCCUCGCUGCGCAUUAAGCACACAGUGCUUCAUUUGGCCAAGUACCGUGCAGCAGGGCUAA
((...........(((..(..((...((((...))))....))..)..))).........(((.(((((((...((((((...)))))).....((.......))))))))))))))... ( -31.50)
>DroSim_CAF1 14837 120 + 1
GCUACUUUCUCUGGGCUCCUUUCUUCUGACCCCGUCAAAUUGACUGCUGCCAAAUGUUUUCCUCGCUGCGCAUUAAGCACACAGUGCUUCAUUUGGCCAAGUACAGUGCAGCAGGGCUAA
((...........(((..(..((...((((...))))....))..)..))).........(((.(((((((...((((((...))))))....((........))))))))))))))... ( -30.60)
>DroEre_CAF1 15152 120 + 1
GCCACUUUCUCUUGGCUCCUUUCUUCUGACCCCGUCAAAUUGACUGCUGCCAAAUGUUUUCAACGCUGCGCAUUAAGCGCACAGUGCUUCAUUUGGCCAAGUACAGUGCGGCGGGGCUAA
((((........)))).............(((((((..(((((((...((((((((......((..(((((.....)))))..))....))))))))..))).))))..))))))).... ( -44.70)
>DroYak_CAF1 15906 120 + 1
GCCACUUUCUCUUGGCUCCUUUCUUUUGACCCCAUCAAAUUGACUGCUGCCAAAUGUUUUCCUCGCUGCGCAUUAAGCACACAGUGCUUCAUUUGGCCAAGUACAGUGCAGCAGGGCUAA
(((........(((((..(..((.(((((.....)))))..))..)..)))))...........(((((((...((((((...))))))....((........)))))))))..)))... ( -33.50)
>consensus
GCUACUUUCUCUGGGCUCCUUUCUUCUGACCCCGUCAAAUUGACUGCUGCCAAAUGUUUUCCUCGCUGCGCAUUAAGCACACAGUGCUUCAUUUGGCCAAGUACAGUGCAGCAGGGCUAA
(((..........))).............(((.((...(((((((...((((((((.......(((((.((.....))...)))))...))))))))..))).))))...)).))).... (-26.82 = -27.18 +   0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:42:48 2006