Locus 554

Sequence ID 3L_DroMel_CAF1
Location 1,585,758 – 1,585,864
Length 106
Max. P 0.994869
window848 window849

overview

Window 8

Location 1,585,758 – 1,585,864
Length 106
Sequences 5
Columns 106
Reading direction forward
Mean pairwise identity 93.02
Mean single sequence MFE -34.91
Consensus MFE -28.20
Energy contribution -28.36
Covariance contribution 0.16
Combinations/Pair 1.04
Mean z-score -1.83
Structure conservation index 0.81
SVM decision value 0.97
SVM RNA-class probability 0.893051
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1585758 106 + 23771897
GGAGCAGUGGAGAGAUAGCUCCUCCAGCUGGUCGCUGGCCCGCAGAAGCUACAACAAACUAGUGUGUCGCGGUAUUCCGAUUGCGAUCUCUCCCGCUCAUUAAAAA
.((((.(.((((((((.((....(((((.....))))).((((.((.((((........))))...))))))..........)).)))))))))))))........ ( -39.20)
>DroSec_CAF1 4674 106 + 1
GGAGCAGAGGAGAGAUACCUCCUCCAGCUGGUCGCUGGCACGCAGAAGCUACAACAAACUAGUGUGUCGCGCUAUACCGAUUCCGAUCUCUCCCGCUCAUUAAAAA
.((((.(.((((((((......((....(((.(((.(((((((((.............)).)))))))))))))....)).....)))))))))))))........ ( -33.52)
>DroSim_CAF1 4767 106 + 1
GGAGCAGAGGAGAGAUAGCUCCUCCAGCUGGUCGCUGGCACGCAGAAGCUACAACAAACUAGUGUGUCGCGCUAUUCCGAUUCCGAUCUCUCCCGCUCAUUAAAAA
.((((.(.((((((((((((.....))))((.(((.(((((((((.............)).))))))))))))............)))))))))))))........ ( -35.42)
>DroEre_CAF1 4614 106 + 1
AGAGCAGAGGAGAGAUAGCUCCUCCAGCUGGUCGCUGGCCCGCAGAAGCUACAACCAGCUAGUGUGCCGCUCUAUUCCGAUUCCGAUCUCUCCCGCUCAUUAAAAA
.((((.(.((((((((.((.(((..(((((((.(.((((........))))).))))))))).).))..........((....)))))))))))))))........ ( -36.30)
>DroYak_CAF1 4634 106 + 1
GGAGCAGAGAAGAAAUAGCUCCUCCAGCUGGUCGCUGGCCCGCAGAAGCUACAACCCGCUAGUGUGCCGCUCUAUUUCGAUUCCGAUCUCUCCCGCUCGUUAAAAA
.((((.((((.(((((((.....(((((.....)))))..((((..(((........)))..)))).....)))))))(((....)))))))..))))........ ( -30.10)
>consensus
GGAGCAGAGGAGAGAUAGCUCCUCCAGCUGGUCGCUGGCCCGCAGAAGCUACAACAAACUAGUGUGUCGCGCUAUUCCGAUUCCGAUCUCUCCCGCUCAUUAAAAA
.((((.(.((((((((.......(((((.....)))))...((.(..((((........))))...).))...............)))))))))))))........ (-28.20 = -28.36 +   0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 1,585,758 – 1,585,864
Length 106
Sequences 5
Columns 106
Reading direction reverse
Mean pairwise identity 93.02
Mean single sequence MFE -40.06
Consensus MFE -35.16
Energy contribution -35.40
Covariance contribution 0.24
Combinations/Pair 1.10
Mean z-score -2.04
Structure conservation index 0.88
SVM decision value 2.52
SVM RNA-class probability 0.994869
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1585758 106 - 23771897
UUUUUAAUGAGCGGGAGAGAUCGCAAUCGGAAUACCGCGACACACUAGUUUGUUGUAGCUUCUGCGGGCCAGCGACCAGCUGGAGGAGCUAUCUCUCCACUGCUCC
........((((.((((((((.((..........((((((((........)))))).((....)))).(((((.....)))))....)).))))))))...)))). ( -40.10)
>DroSec_CAF1 4674 106 - 1
UUUUUAAUGAGCGGGAGAGAUCGGAAUCGGUAUAGCGCGACACACUAGUUUGUUGUAGCUUCUGCGUGCCAGCGACCAGCUGGAGGAGGUAUCUCUCCUCUGCUCC
........(((((((((((((.........(((((((.(((......))))))))))((((((.....(((((.....))))).)))))))))))))))..)))). ( -38.70)
>DroSim_CAF1 4767 106 - 1
UUUUUAAUGAGCGGGAGAGAUCGGAAUCGGAAUAGCGCGACACACUAGUUUGUUGUAGCUUCUGCGUGCCAGCGACCAGCUGGAGGAGCUAUCUCUCCUCUGCUCC
........(((((((((((((...............((((((........))))))(((((((.....(((((.....)))))))))))))))))))))..)))). ( -39.00)
>DroEre_CAF1 4614 106 - 1
UUUUUAAUGAGCGGGAGAGAUCGGAAUCGGAAUAGAGCGGCACACUAGCUGGUUGUAGCUUCUGCGGGCCAGCGACCAGCUGGAGGAGCUAUCUCUCCUCUGCUCU
........(((((((((((((.....((......))..(((.(.((((((((((((.(((......)))..)))))))))))).)..))))))))))))..)))). ( -44.80)
>DroYak_CAF1 4634 106 - 1
UUUUUAACGAGCGGGAGAGAUCGGAAUCGAAAUAGAGCGGCACACUAGCGGGUUGUAGCUUCUGCGGGCCAGCGACCAGCUGGAGGAGCUAUUUCUUCUCUGCUCC
........((((((..(((((((....))).....(((....(.(((((.((((((.(((......)))..)))))).))))).)..)))...))))..)))))). ( -37.70)
>consensus
UUUUUAAUGAGCGGGAGAGAUCGGAAUCGGAAUAGCGCGACACACUAGUUUGUUGUAGCUUCUGCGGGCCAGCGACCAGCUGGAGGAGCUAUCUCUCCUCUGCUCC
........(((((((((((((...............((((((........))))))(((((((.....(((((.....)))))))))))))))))))))..)))). (-35.16 = -35.40 +   0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:45:13 2006