Locus 5647

Sequence ID 3R_DroMel_CAF1
Location 14,832,995 – 14,833,155
Length 160
Max. P 0.915320
window9218 window9219 window9220

overview

Window 8

Location 14,832,995 – 14,833,115
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 96.11
Mean single sequence MFE -46.00
Consensus MFE -43.12
Energy contribution -43.23
Covariance contribution 0.11
Combinations/Pair 1.03
Mean z-score -1.74
Structure conservation index 0.94
SVM decision value 0.28
SVM RNA-class probability 0.666537
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14832995 120 + 27905053
GAUUCUGUGCGUGCCAAUGUCUGCGCACUUGAAAUGGCUAAUGGGGAAAGAGGCGGCGCAUUGCUGCUGGCAUUGCUUUCUGUCCCCCCGAAUCUCGGAUCGAGAGAUUCAGAACCAUGC
..(((.(((((((........)))))))..)))((((.....(((((.(((((((((.....))))))(((...))).))).)))))..(((((((.......)))))))....)))).. ( -42.30)
>DroSec_CAF1 11180 120 + 1
GAUUCUGUGCGUGCCAAUGUCUGCGCACUUGAAAUGGCUAAUGGGGGAAGACGCGGCGCAUUGCUGCUGGCACUGCUUUCUGUCCCCCCGAAUCUCGGAUCGAGAGAUUCUGAGCCAUGC
..(((.(((((((........)))))))..)))((((((...(((((..((((..(.(((.(((.....))).))).)..)))))))))(((((((.......)))))))..)))))).. ( -49.00)
>DroSim_CAF1 11343 120 + 1
GAUUCUGUGCGUGCCAAUGUCUGCGCACUUGAAAUGGCUAAUGGGGAAAGACGCGGCGCAUUGCUGCUGGCAUUGCAUUCUGUCCCCCCGAAUCUCGGAUCGAGAGAUUCACAGCCAUGC
..(((.(((((((........)))))))..)))((((((...((((...((((..(.(((.(((.....))).))).)..)))).))))(((((((.......)))))))..)))))).. ( -46.70)
>consensus
GAUUCUGUGCGUGCCAAUGUCUGCGCACUUGAAAUGGCUAAUGGGGAAAGACGCGGCGCAUUGCUGCUGGCAUUGCUUUCUGUCCCCCCGAAUCUCGGAUCGAGAGAUUCAGAGCCAUGC
..(((.(((((((........)))))))..)))((((((...(((((.(((.(((((.....)))))..((...))..))).)))))..(((((((.......)))))))..)))))).. (-43.12 = -43.23 +   0.11)

alignment

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secondary structure

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dotplot

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Window 9

Location 14,832,995 – 14,833,115
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 96.11
Mean single sequence MFE -44.20
Consensus MFE -41.74
Energy contribution -41.30
Covariance contribution -0.44
Combinations/Pair 1.05
Mean z-score -2.25
Structure conservation index 0.94
SVM decision value 1.10
SVM RNA-class probability 0.915320
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14832995 120 - 27905053
GCAUGGUUCUGAAUCUCUCGAUCCGAGAUUCGGGGGGACAGAAAGCAAUGCCAGCAGCAAUGCGCCGCCUCUUUCCCCAUUAGCCAUUUCAAGUGCGCAGACAUUGGCACGCACAGAAUC
(((((((((((((((((.......)))))))))(((((.(((..(((.(((.....))).)))......))).)))))...)))))).....((((.(((...)))))))))........ ( -42.10)
>DroSec_CAF1 11180 120 - 1
GCAUGGCUCAGAAUCUCUCGAUCCGAGAUUCGGGGGGACAGAAAGCAGUGCCAGCAGCAAUGCGCCGCGUCUUCCCCCAUUAGCCAUUUCAAGUGCGCAGACAUUGGCACGCACAGAAUC
((((((((..(((((((.......))))))).((((((.(((.....(((...(((....)))..))).)))))))))...)))))).....((((.(((...)))))))))........ ( -45.50)
>DroSim_CAF1 11343 120 - 1
GCAUGGCUGUGAAUCUCUCGAUCCGAGAUUCGGGGGGACAGAAUGCAAUGCCAGCAGCAAUGCGCCGCGUCUUUCCCCAUUAGCCAUUUCAAGUGCGCAGACAUUGGCACGCACAGAAUC
(((((((((((((((((.......)))))))).(((((.(((.(((...((..(((....))))).)))))).)))))..))))))).....((((.(((...)))))))))........ ( -45.00)
>consensus
GCAUGGCUCUGAAUCUCUCGAUCCGAGAUUCGGGGGGACAGAAAGCAAUGCCAGCAGCAAUGCGCCGCGUCUUUCCCCAUUAGCCAUUUCAAGUGCGCAGACAUUGGCACGCACAGAAUC
((((((((..(((((((.......))))))).((((((.(((..(((.(((.....))).)))......)))))))))...)))))).....((((.(((...)))))))))........ (-41.74 = -41.30 +  -0.44)

alignment

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secondary structure

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dotplot

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Window 0

Location 14,833,035 – 14,833,155
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 95.56
Mean single sequence MFE -46.17
Consensus MFE -41.97
Energy contribution -42.63
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -1.85
Structure conservation index 0.91
SVM decision value 0.26
SVM RNA-class probability 0.655437
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14833035 120 + 27905053
AUGGGGAAAGAGGCGGCGCAUUGCUGCUGGCAUUGCUUUCUGUCCCCCCGAAUCUCGGAUCGAGAGAUUCAGAACCAUGCGUCUUCCAGUGGCGCACAGAACGUCAAAAUGCGGACCCAA
.((((......((((((.....)))))).(((((((.((((((......(((((((.......)))))))........(((((.......))))))))))).))...)))))...)))). ( -43.50)
>DroSec_CAF1 11220 120 + 1
AUGGGGGAAGACGCGGCGCAUUGCUGCUGGCACUGCUUUCUGUCCCCCCGAAUCUCGGAUCGAGAGAUUCUGAGCCAUGCGUCUUCCAGUGGCGCACAGAACGUCAAAAUGCGGCCCCAA
.(((((((((((((((((((.(((.....))).))).............(((((((.......)))))))...)))..)))))))))..(((((.......))))).........)))). ( -48.60)
>DroSim_CAF1 11383 120 + 1
AUGGGGAAAGACGCGGCGCAUUGCUGCUGGCAUUGCAUUCUGUCCCCCCGAAUCUCGGAUCGAGAGAUUCACAGCCAUGCGUCUUCCAGUGGCGCACAGAACGUCAAAAUGCGGCCCCAA
.(((((.....((((((((((.((((..((((........)))).....(((((((.......))))))).)))).)))))))......(((((.......)))))....))).))))). ( -46.40)
>consensus
AUGGGGAAAGACGCGGCGCAUUGCUGCUGGCAUUGCUUUCUGUCCCCCCGAAUCUCGGAUCGAGAGAUUCAGAGCCAUGCGUCUUCCAGUGGCGCACAGAACGUCAAAAUGCGGCCCCAA
.(((((......(((((.....)))))..(((((((.((((((......(((((((.......)))))))........(((((.......))))))))))).))...)))))..))))). (-41.97 = -42.63 +   0.67)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:00:32 2006