Locus 6973

Sequence ID 2L_DroMel_CAF1
Location 19,365,963 – 19,366,070
Length 107
Max. P 0.903731
window11121 window11122

overview

Window 1

Location 19,365,963 – 19,366,070
Length 107
Sequences 5
Columns 109
Reading direction forward
Mean pairwise identity 85.19
Mean single sequence MFE -36.42
Consensus MFE -26.46
Energy contribution -26.02
Covariance contribution -0.44
Combinations/Pair 1.15
Mean z-score -2.01
Structure conservation index 0.73
SVM decision value 0.65
SVM RNA-class probability 0.810649
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19365963 107 + 22407834
U--GGUUGUGGCGGUUGUUUUUUUCGGUGGAAAAGCGGGAGGCUGGGGGCCUCCGGUAGACGCCUUAAUUGGUGGGCGUCACAAAAUAUUUACCGUAACACUUACCGCU
.--......((((((((((.....(((((((...((.((((((.....)))))).)).(((((((........)))))))........))))))).))))...)))))) ( -45.50)
>DroSec_CAF1 29461 99 + 1
U--GG--------GUUGUUUUUUUGGGUGGAAAAGCGGGAGGCUGGGGGCCUCCAGUAGACGCCUUAAUUGGUGGGCGUCACAAAAUAUUUACCGUAACACUUACCGCU
.--.(--------((((((......((((((...((.((((((.....)))))).)).(((((((........)))))))........))))))..))))...)))... ( -34.40)
>DroSim_CAF1 29857 98 + 1
U--GC--------GUUGUUUUUUUGGG-GGAAGAGGGGGAGGCUGGGGGCCUCCAGUAGACGCCUUAAUUGGUGGGCGUCACAAAAUAUUUACCGUAACACUUACCGCU
.--((--------(.((((....(((.-.((......((((((.....)))))).((.(((((((........)))))))))......))..))).)))).....))). ( -32.90)
>DroEre_CAF1 28619 102 + 1
CCAUC-----GC-GAUGGUUUUUUGGGCAAAAGUGGGGGAGGCUGG-GGCCUCCAGUAGACGCCUUAAUUGGCGGGCGUCACAAAAUAUUUACCGUUACACUUACCGCU
((((.-----..-.)))).......(((..(((((..((((((...-.)))))).((.(((((((........)))))))))................)))))...))) ( -34.70)
>DroYak_CAF1 33618 98 + 1
U--GU-----GC-UAUGGUUUUUUGGGCAAAAGCG---GAGGCUGGGGGCCUUCAGUAGACGCCUUAAUUGGGGGGCGUCACAAAAUAUUUACCGUUACACUUACCGCU
.--((-----(.-.(((((.(((((.((....))(---(((((.....))))))....((((((((......)))))))).))))).....)))))..)))........ ( -34.60)
>consensus
U__GC_____GC_GUUGUUUUUUUGGGCGGAAGAGCGGGAGGCUGGGGGCCUCCAGUAGACGCCUUAAUUGGUGGGCGUCACAAAAUAUUUACCGUAACACUUACCGCU
.........................((.(((......((((((.....)))))).((.(((((((........)))))))))......))).))............... (-26.46 = -26.02 +  -0.44)

alignment

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secondary structure

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dotplot

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Window 2

Location 19,365,963 – 19,366,070
Length 107
Sequences 5
Columns 109
Reading direction reverse
Mean pairwise identity 85.19
Mean single sequence MFE -28.82
Consensus MFE -21.06
Energy contribution -21.70
Covariance contribution 0.64
Combinations/Pair 1.04
Mean z-score -2.25
Structure conservation index 0.73
SVM decision value 1.03
SVM RNA-class probability 0.903731
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19365963 107 - 22407834
AGCGGUAAGUGUUACGGUAAAUAUUUUGUGACGCCCACCAAUUAAGGCGUCUACCGGAGGCCCCCAGCCUCCCGCUUUUCCACCGAAAAAAACAACCGCCACAACC--A
.(((((..((.((.((((.........((((((((..........)))))).)).((((((.....)))))).........)))).))...)).))))).......--. ( -33.50)
>DroSec_CAF1 29461 99 - 1
AGCGGUAAGUGUUACGGUAAAUAUUUUGUGACGCCCACCAAUUAAGGCGUCUACUGGAGGCCCCCAGCCUCCCGCUUUUCCACCCAAAAAAACAAC--------CC--A
...(((..(((((((((........)))))))))..)))....((((((......((((((.....))))))))))))..................--------..--. ( -28.30)
>DroSim_CAF1 29857 98 - 1
AGCGGUAAGUGUUACGGUAAAUAUUUUGUGACGCCCACCAAUUAAGGCGUCUACUGGAGGCCCCCAGCCUCCCCCUCUUCC-CCCAAAAAAACAAC--------GC--A
.(((((..(((((((((........)))))))))..)))......((........((((((.....))))))........)-).............--------))--. ( -27.49)
>DroEre_CAF1 28619 102 - 1
AGCGGUAAGUGUAACGGUAAAUAUUUUGUGACGCCCGCCAAUUAAGGCGUCUACUGGAGGCC-CCAGCCUCCCCCACUUUUGCCCAAAAAACCAUC-GC-----GAUGG
.(((((..((.....((((((......((((((((..........)))))).)).((((((.-...))))))......))))))......)).)))-))-----..... ( -31.90)
>DroYak_CAF1 33618 98 - 1
AGCGGUAAGUGUAACGGUAAAUAUUUUGUGACGCCCCCCAAUUAAGGCGUCUACUGAAGGCCCCCAGCCUC---CGCUUUUGCCCAAAAAACCAUA-GC-----AC--A
........((((...(((.....(((.((((((((..........)))))).)).)))(((....(((...---.)))...)))......)))...-))-----))--. ( -22.90)
>consensus
AGCGGUAAGUGUUACGGUAAAUAUUUUGUGACGCCCACCAAUUAAGGCGUCUACUGGAGGCCCCCAGCCUCCCCCUCUUCCACCCAAAAAAACAAC_GC_____CC__A
...(((.((((..((((........))))((((((..........))))))))))((((((.....)))))).........)))......................... (-21.06 = -21.70 +   0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:24:18 2006