Locus 51

Sequence ID 3L_DroMel_CAF1
Location 176,943 – 177,140
Length 197
Max. P 0.821861
window70 window71 window72 window73

overview

Window 0

Location 176,943 – 177,063
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 88.06
Mean single sequence MFE -22.93
Consensus MFE -19.58
Energy contribution -19.80
Covariance contribution 0.22
Combinations/Pair 1.05
Mean z-score -2.17
Structure conservation index 0.85
SVM decision value 0.68
SVM RNA-class probability 0.821861
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 176943 120 - 23771897
GACAAGCUGUUAAAUAAGAAACAGCAGCAGAUGAACCAUUCUGCUCAAGCUACACCCCCACCAAUUUCACCAACUCCACCUGCUUCUGAAACACGUAUCGUAAAAGAUCAAUGUGAUCUU
.....((((((........))))))((((((........)))))).((((...............................))))......((((((((......)))..)))))..... ( -20.78)
>DroSec_CAF1 10658 120 - 1
GACAAGCUGUUAAAUAAGAAACAGCAGCAGAUAAACCAUUCUGCUAAAGCUAAAUCCCCAUCAAUGUCACCAACUCCACCUGCUUCUGAAACACUUAUCGUAAAAGAUCAAUGUGAUCUU
((((.((((((........))))))((((((........))))))...................))))...................................((((((.....)))))) ( -24.90)
>DroYak_CAF1 10861 120 - 1
GACAAGCUGUUGAAUAAGAAACAGCAGCAAUUGAACCAUGCUGCACAAGCUACACCACCACCAAUGUCACCAACUCCACCUGCUCCUACGACACCUAUCGUGAAAGAUCAAAGCGAUCAU
((((.(((((((.........)))))))...........(((.....)))..............))))..................(((((......)))))...((((.....)))).. ( -23.10)
>consensus
GACAAGCUGUUAAAUAAGAAACAGCAGCAGAUGAACCAUUCUGCUCAAGCUACACCCCCACCAAUGUCACCAACUCCACCUGCUUCUGAAACACCUAUCGUAAAAGAUCAAUGUGAUCUU
((((.((((((........)))))).(((((........)))))....................)))).....................................((((.....)))).. (-19.58 = -19.80 +   0.22)

alignment

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secondary structure

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dotplot

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Window 1

Location 176,983 – 177,103
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 90.56
Mean single sequence MFE -29.17
Consensus MFE -24.34
Energy contribution -24.90
Covariance contribution 0.56
Combinations/Pair 1.04
Mean z-score -1.83
Structure conservation index 0.83
SVM decision value -0.03
SVM RNA-class probability 0.517869
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 176983 120 - 23771897
CCAGAGAAAAGUAGCUAGCGGAAAAGGGACUAGUUCGUUGGACAAGCUGUUAAAUAAGAAACAGCAGCAGAUGAACCAUUCUGCUCAAGCUACACCCCCACCAAUUUCACCAACUCCACC
..........(((((((((((((...((....(((.....)))..((((((........))))))..........)).)))))))..))))))........................... ( -28.50)
>DroSec_CAF1 10698 120 - 1
CCAGAGAAAAGUAGCUAGCGGGAAAGCGACUAGUUCGUUGGACAAGCUGUUAAAUAAGAAACAGCAGCAGAUAAACCAUUCUGCUAAAGCUAAAUCCCCAUCAAUGUCACCAACUCCACC
..........(.((((((((......)).)))))))((((((((.((((((........))))))((((((........))))))...................)))..)))))...... ( -29.70)
>DroYak_CAF1 10901 120 - 1
CCAGAGGAAGGUAGCCAGCGGAAAAGCGACUAGUUCGUUGGACAAGCUGUUGAAUAAGAAACAGCAGCAAUUGAACCAUGCUGCACAAGCUACACCACCACCAAUGUCACCAACUCCACC
...(((...(((.(((((((((..((...))..)))))))).).(((((((........))).((((((.........))))))...)))).................)))..))).... ( -29.30)
>consensus
CCAGAGAAAAGUAGCUAGCGGAAAAGCGACUAGUUCGUUGGACAAGCUGUUAAAUAAGAAACAGCAGCAGAUGAACCAUUCUGCUCAAGCUACACCCCCACCAAUGUCACCAACUCCACC
..........(.((((((((......)).)))))))(((((....((((((........)))))).(((((........))))).........................)))))...... (-24.34 = -24.90 +   0.56)

alignment

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secondary structure

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dotplot

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Window 2

Location 177,023 – 177,140
Length 117
Sequences 3
Columns 117
Reading direction forward
Mean pairwise identity 80.34
Mean single sequence MFE -20.77
Consensus MFE -16.07
Energy contribution -15.63
Covariance contribution -0.44
Combinations/Pair 1.11
Mean z-score -1.44
Structure conservation index 0.77
SVM decision value 0.15
SVM RNA-class probability 0.605624
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 177023 117 + 23771897
AAUGGUUCAUCUGCUGCUGUUUCUUAUUUAACAGCUUGUCCAACGAACUAGUCCCUUUUCCGCUAGCUACUUUUCUCUGGCUUAUUUCUUGUUCCAAAUUUGCAACCUUCUUAGGAG
..((((((....((.((((((........))))))..)).....))))))........((((((((..........))))).......((((.........))))........))). ( -20.40)
>DroSec_CAF1 10738 95 + 1
AAUGGUUUAUCUGCUGCUGUUUCUUAUUUAACAGCUUGUCCAACGAACUAGUCGCUUUCCCGCUAGCUACUUUUCUCUGGCUAAUUUCUUGUUCU----------------------
..(((.......((.((((((........))))))..)))))..((((.((..((......))((((((........))))))....)).)))).---------------------- ( -18.01)
>DroYak_CAF1 10941 117 + 1
CAUGGUUCAAUUGCUGCUGUUUCUUAUUCAACAGCUUGUCCAACGAACUAGUCGCUUUUCCGCUGGCUACCUUCCUCUGGCUUAUUUCUUGUUCUAAAUUUGCCACCUUCUUAGGAG
..((((((....((.((((((........))))))..)).....))))))(((((......)).)))..(((.....((((..((((........))))..)))).......))).. ( -23.90)
>consensus
AAUGGUUCAUCUGCUGCUGUUUCUUAUUUAACAGCUUGUCCAACGAACUAGUCGCUUUUCCGCUAGCUACUUUUCUCUGGCUUAUUUCUUGUUCUAAAUUUGC_ACCUUCUUAGGAG
..((((((....((.((((((........))))))..)).....))))))...........(((((..........))))).................................... (-16.07 = -15.63 +  -0.44)

alignment

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secondary structure

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dotplot

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Window 3

Location 177,023 – 177,140
Length 117
Sequences 3
Columns 117
Reading direction reverse
Mean pairwise identity 80.34
Mean single sequence MFE -24.20
Consensus MFE -18.24
Energy contribution -17.80
Covariance contribution -0.44
Combinations/Pair 1.11
Mean z-score -1.77
Structure conservation index 0.75
SVM decision value 0.66
SVM RNA-class probability 0.813385
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 177023 117 - 23771897
CUCCUAAGAAGGUUGCAAAUUUGGAACAAGAAAUAAGCCAGAGAAAAGUAGCUAGCGGAAAAGGGACUAGUUCGUUGGACAAGCUGUUAAAUAAGAAACAGCAGCAGAUGAACCAUU
.((((..(..((((((...(((((....(....)...))))).....))))))..).....))))....(((((((.(....((((((........))))))..).))))))).... ( -24.80)
>DroSec_CAF1 10738 95 - 1
----------------------AGAACAAGAAAUUAGCCAGAGAAAAGUAGCUAGCGGGAAAGCGACUAGUUCGUUGGACAAGCUGUUAAAUAAGAAACAGCAGCAGAUAAACCAUU
----------------------..............(((((.(((.(((.(((........))).)))..))).)))).)..((((((........))))))............... ( -17.70)
>DroYak_CAF1 10941 117 - 1
CUCCUAAGAAGGUGGCAAAUUUAGAACAAGAAAUAAGCCAGAGGAAGGUAGCCAGCGGAAAAGCGACUAGUUCGUUGGACAAGCUGUUGAAUAAGAAACAGCAGCAAUUGAACCAUG
.((((.......((((..((((........))))..)))).)))).(((.(((((((((..((...))..)))))))).)..(((((((.........)))))))......)))... ( -30.10)
>consensus
CUCCUAAGAAGGU_GCAAAUUUAGAACAAGAAAUAAGCCAGAGAAAAGUAGCUAGCGGAAAAGCGACUAGUUCGUUGGACAAGCUGUUAAAUAAGAAACAGCAGCAGAUGAACCAUU
....................................((............(((((((((..((...))..)))))))).)..((((((........)))))).))............ (-18.24 = -17.80 +  -0.44)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:31:05 2006