Locus 4361

Sequence ID 3L_DroMel_CAF1
Location 12,798,320 – 12,798,439
Length 119
Max. P 0.968470
window6750 window6751

overview

Window 0

Location 12,798,320 – 12,798,439
Length 119
Sequences 6
Columns 119
Reading direction forward
Mean pairwise identity 85.10
Mean single sequence MFE -39.80
Consensus MFE -34.66
Energy contribution -34.88
Covariance contribution 0.23
Combinations/Pair 1.22
Mean z-score -2.71
Structure conservation index 0.87
SVM decision value 1.63
SVM RNA-class probability 0.968470
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12798320 119 + 23771897
ACCGCAAAACAUACACUCCCUGGCAAUGACCAGGUUCAAUUGCGUUCGUUGCAAUUGGAAUUCACCCACCCACACUUGGGUGGCCAUGGGUGCGGAACAUGGCAUGUUGCGAAUCCUCA
..((((..((((......(((((......)))))((((((((((.....)))))))))).......((((((....))))))((((((.........))))))))))))))........ ( -43.00)
>DroSec_CAF1 39716 119 + 1
ACCGCAAAACAUACACUCCCUGGCAUUGACCAGAUUCAAUUGCGUUCGUUGCAAUUGGAAUUCACCCACCCACACUUGGGUGGCCAUGGGUGCAGAACAUGGCAUGUUGCGAAUCCUCA
..((((..((((.......((((......)))).((((((((((.....)))))))))).......((((((....))))))((((((.........))))))))))))))........ ( -40.30)
>DroSim_CAF1 39007 119 + 1
ACCGCAAAACAUACACUCCCUGGCAUUGACCAGAUUCAAUUGCGUUCGUUGCAAUUGGAAUUCACCCACCCACACUUGGGUGGCCAUGGGUGCAGAACAUGGCAUGUUGCGAAUCCUCA
..((((..((((.......((((......)))).((((((((((.....)))))))))).......((((((....))))))((((((.........))))))))))))))........ ( -40.30)
>DroEre_CAF1 43931 119 + 1
ACCGCAAAACAUAAACUCUCUGGCAAUGACCAGAUUCAAUUGCGUUCGAUGCAAUUGGAAUACGUCCACCCAUACUUGGGUGGCCAUGGGUGCCGAACAUGGCAUGUUGCGAAUCCUCA
..((((..((((..(((((((((......)))))(((((((((((...)))))))))))....(.(((((((....))))))).)..))))(((......)))))))))))........ ( -43.10)
>DroYak_CAF1 42220 119 + 1
ACCGCAAAACAUACACUCUCUGGCACUGACCAGAUUCAAUUGCGUUCGUUGCAAUUGGAAUUCCUCCACUCAUACGUGGGUGGCCAUGGGCGCAGAACAUGGCUUGUUGCGAAUCCUUA
..(((((......(((..(((((......)))))((((((((((.....))))))))))......((((......)))))))((((((..(...)..))))))...)))))........ ( -39.40)
>DroAna_CAF1 32194 119 + 1
GCCAAAAAACCUUACCAGUUUGCCCCUGACUCGAUACAACUGCGUUCACUGCAAUUGGAACAGUCCCGCCAACUCCUUGGUGGCCGUGGGCACCGAACACGGCCUGCUGCGUAUUCUCA
............(((((((.((((((.((((.....(((.((((.....)))).)))....))))(((((((....)))))))..).)))))(((....)))...)))).)))...... ( -32.70)
>consensus
ACCGCAAAACAUACACUCCCUGGCAAUGACCAGAUUCAAUUGCGUUCGUUGCAAUUGGAAUUCACCCACCCACACUUGGGUGGCCAUGGGUGCAGAACAUGGCAUGUUGCGAAUCCUCA
..(((((...........(((((......)))))((((((((((.....)))))))))).......((((((....))))))((((((.........))))))...)))))........ (-34.66 = -34.88 +   0.23)

alignment

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secondary structure

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dotplot

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Window 1

Location 12,798,320 – 12,798,439
Length 119
Sequences 6
Columns 119
Reading direction reverse
Mean pairwise identity 85.10
Mean single sequence MFE -40.90
Consensus MFE -33.51
Energy contribution -33.85
Covariance contribution 0.34
Combinations/Pair 1.27
Mean z-score -1.54
Structure conservation index 0.82
SVM decision value -0.03
SVM RNA-class probability 0.515859
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12798320 119 - 23771897
UGAGGAUUCGCAACAUGCCAUGUUCCGCACCCAUGGCCACCCAAGUGUGGGUGGGUGAAUUCCAAUUGCAACGAACGCAAUUGAACCUGGUCAUUGCCAGGGAGUGUAUGUUUUGCGGU
.......(((((((((((.........(((((((..((((......))))))))))).(((((((((((.......)))))))..((((((....))))))))))))))))..))))). ( -44.50)
>DroSec_CAF1 39716 119 - 1
UGAGGAUUCGCAACAUGCCAUGUUCUGCACCCAUGGCCACCCAAGUGUGGGUGGGUGAAUUCCAAUUGCAACGAACGCAAUUGAAUCUGGUCAAUGCCAGGGAGUGUAUGUUUUGCGGU
.......(((((((((((.........(((((((..((((......))))))))))).(((((((((((.......))))))....(((((....))))))))))))))))..))))). ( -42.00)
>DroSim_CAF1 39007 119 - 1
UGAGGAUUCGCAACAUGCCAUGUUCUGCACCCAUGGCCACCCAAGUGUGGGUGGGUGAAUUCCAAUUGCAACGAACGCAAUUGAAUCUGGUCAAUGCCAGGGAGUGUAUGUUUUGCGGU
.......(((((((((((.........(((((((..((((......))))))))))).(((((((((((.......))))))....(((((....))))))))))))))))..))))). ( -42.00)
>DroEre_CAF1 43931 119 - 1
UGAGGAUUCGCAACAUGCCAUGUUCGGCACCCAUGGCCACCCAAGUAUGGGUGGACGUAUUCCAAUUGCAUCGAACGCAAUUGAAUCUGGUCAUUGCCAGAGAGUUUAUGUUUUGCGGU
.......((((((...((((((.........))))))((((((....))))))((((((..((((((((.......)))))))..((((((....))))))..)..)))))))))))). ( -41.40)
>DroYak_CAF1 42220 119 - 1
UAAGGAUUCGCAACAAGCCAUGUUCUGCGCCCAUGGCCACCCACGUAUGAGUGGAGGAAUUCCAAUUGCAACGAACGCAAUUGAAUCUGGUCAGUGCCAGAGAGUGUAUGUUUUGCGGU
.......((((((..(..(((.(((((.((...((((((.((((......))))........(((((((.......)))))))....))))))..))))))).)))..)...)))))). ( -37.60)
>DroAna_CAF1 32194 119 - 1
UGAGAAUACGCAGCAGGCCGUGUUCGGUGCCCACGGCCACCAAGGAGUUGGCGGGACUGUUCCAAUUGCAGUGAACGCAGUUGUAUCGAGUCAGGGGCAAACUGGUAAGGUUUUUUGGC
..........(((.(((((....(((((((((.(.((((.(.....).)))).)(((((...(((((((.(....))))))))...).))))..))))..)))))...))))).))).. ( -37.90)
>consensus
UGAGGAUUCGCAACAUGCCAUGUUCUGCACCCAUGGCCACCCAAGUGUGGGUGGGUGAAUUCCAAUUGCAACGAACGCAAUUGAAUCUGGUCAAUGCCAGAGAGUGUAUGUUUUGCGGU
...((((((((.....((((((.........))))))((((((....)))))).))))))))(((((((.......)))))))..((((((....)))))).................. (-33.51 = -33.85 +   0.34)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:20:34 2006