Locus 7569

Sequence ID X_DroMel_CAF1
Location 18,838,324 – 18,838,434
Length 110
Max. P 0.949669
window12424 window12425

overview

Window 4

Location 18,838,324 – 18,838,434
Length 110
Sequences 3
Columns 117
Reading direction forward
Mean pairwise identity 85.30
Mean single sequence MFE -34.77
Consensus MFE -25.72
Energy contribution -25.83
Covariance contribution 0.11
Combinations/Pair 1.03
Mean z-score -3.07
Structure conservation index 0.74
SVM decision value 1.39
SVM RNA-class probability 0.949669
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18838324 110 + 22224390
GCUCUGACAUUGUAAGUCACAUUUGAUGUACAAUGCUGCUGCU---GCUGCUGGUCGCCACUCCGACUGAUUCCUGCAGCAUUUCCAUCAUUUCCAUCAUUGAUGGAGUUUCU----
((...(.(((((((.((((....)))).)))))))).))((((---((.(..(((((......)))))..)....)))))).((((((((..........)))))))).....---- ( -34.40)
>DroSec_CAF1 74870 113 + 1
GCUCUGACAUUGUAAGUCACAUUUGAUGUACAAUGCUGCUGCUGCCGCUGCUGGUCGCCACUCCGACUGAUUCCUGCAGCAUUUCCAUCAUUUCCAUCAUUGAUGGAGUUUCU----
((...(.(((((((.((((....)))).)))))))).))((((((.(..(..(((((......)))))..)..).)))))).((((((((..........)))))))).....---- ( -35.60)
>DroYak_CAF1 72479 106 + 1
GCUCGGACAUUGUAAGUCACAUUUGAUGUACAAUGCUGCUGCUGCUGCUGUUGGUCGCAACUUCGACUGAUUCCUGGAGCAUUUC---------CAUCAUUGAUGGAGCUA--CUAU
((.(((.(((((((.((((....)))).))))))))))..))((((.(.((..((((......))))..))....).)))).(((---------((((...)))))))...--.... ( -34.30)
>consensus
GCUCUGACAUUGUAAGUCACAUUUGAUGUACAAUGCUGCUGCUGC_GCUGCUGGUCGCCACUCCGACUGAUUCCUGCAGCAUUUCCAUCAUUUCCAUCAUUGAUGGAGUUUCU____
((((...(((((((.((((....)))).))))))).((((((..........(((((......))))).......)))))).............((((...))))))))........ (-25.72 = -25.83 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 18,838,324 – 18,838,434
Length 110
Sequences 3
Columns 117
Reading direction reverse
Mean pairwise identity 85.30
Mean single sequence MFE -33.07
Consensus MFE -22.97
Energy contribution -25.63
Covariance contribution 2.67
Combinations/Pair 1.00
Mean z-score -2.46
Structure conservation index 0.69
SVM decision value 0.60
SVM RNA-class probability 0.795169
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18838324 110 - 22224390
----AGAAACUCCAUCAAUGAUGGAAAUGAUGGAAAUGCUGCAGGAAUCAGUCGGAGUGGCGACCAGCAGC---AGCAGCAGCAUUGUACAUCAAAUGUGACUUACAAUGUCAGAGC
----......((((((...))))))..(((((..((((((((........((((......))))..((...---.)).))))))))...)))))..(.((((.......)))).).. ( -34.90)
>DroSec_CAF1 74870 113 - 1
----AGAAACUCCAUCAAUGAUGGAAAUGAUGGAAAUGCUGCAGGAAUCAGUCGGAGUGGCGACCAGCAGCGGCAGCAGCAGCAUUGUACAUCAAAUGUGACUUACAAUGUCAGAGC
----......((((((...))))))..(((((..((((((((........((((......)))).....((....)).))))))))...)))))..(.((((.......)))).).. ( -35.60)
>DroYak_CAF1 72479 106 - 1
AUAG--UAGCUCCAUCAAUGAUG---------GAAAUGCUCCAGGAAUCAGUCGAAGUUGCGACCAACAGCAGCAGCAGCAGCAUUGUACAUCAAAUGUGACUUACAAUGUCCGAGC
..((--((..((((((...))))---------))..))))...(((....((.(..(((((........)))))..).))..(((((((..(((....)))..)))))))))).... ( -28.70)
>consensus
____AGAAACUCCAUCAAUGAUGGAAAUGAUGGAAAUGCUGCAGGAAUCAGUCGGAGUGGCGACCAGCAGC_GCAGCAGCAGCAUUGUACAUCAAAUGUGACUUACAAUGUCAGAGC
..........((((((...))))))..(((((..((((((((........((((......)))).....((....)).))))))))...))))).....(((.......)))..... (-22.97 = -25.63 +   2.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:42:17 2006