Locus 1731

Sequence ID X_DroMel_CAF1
Location 4,815,050 – 4,815,210
Length 160
Max. P 0.588521
window2839 window2840

overview

Window 9

Location 4,815,050 – 4,815,156
Length 106
Sequences 5
Columns 113
Reading direction forward
Mean pairwise identity 96.14
Mean single sequence MFE -25.86
Consensus MFE -21.57
Energy contribution -21.41
Covariance contribution -0.16
Combinations/Pair 1.04
Mean z-score -1.45
Structure conservation index 0.83
SVM decision value 0.11
SVM RNA-class probability 0.588521
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4815050 106 + 22224390
UGCUUUCUUGUCUGUCAUUGAGCCGACAGCACGCGUACCUCCAG-------UAACAACAACCAUACUGACAAUGGCAGCAAUAUCAACAAGUUGGUCAUAACUCGUGACUGAC
.......(((.(((((((((.((.....))...........(((-------((..........))))).)))))))))))).........((..(((((.....)))))..)) ( -26.50)
>DroSec_CAF1 21593 106 + 1
UGCUUUCUUGUCUGUCAUUGAGCCGACAGCACGCGUACCUCCAG-------UAACAACAACCAUACUGACAAUGGCAGCAAUAUCAACAAGUUGGUCAUAACUCGUGACUGAC
.......(((.(((((((((.((.....))...........(((-------((..........))))).)))))))))))).........((..(((((.....)))))..)) ( -26.50)
>DroSim_CAF1 20269 106 + 1
UGCUUUCUUGUCUGUCAUUGAGCCGACAGCACGCGUACCUCCAG-------UAACAACAACCAUACUGACAAUGGCAGCAAUAUCAACAAGUUGGUCAUAACUCGUGACUGAC
.......(((.(((((((((.((.....))...........(((-------((..........))))).)))))))))))).........((..(((((.....)))))..)) ( -26.50)
>DroEre_CAF1 31001 106 + 1
UGCUUUCUUGUCUGUCAUUGAGCCGACAGCACGCGUACCUCCAG-------CAACAACAACCAUACCGACAAUGGCAGCAAUAUCAACAAGUUGGUCAUAACUCGUGACUGAC
.......(((.(((((((((.((.....))..((.........)-------).................)))))))))))).........((..(((((.....)))))..)) ( -24.80)
>DroYak_CAF1 22091 113 + 1
UGCUUUCUUGUCUGUCAUUGAGCCGACAGCACGCGUACCUCCAACCGCCGACAACAACAACCAUACUGACAAUGGCAGCAAUAUCAACAAGUUGGUCAUAACUCGUGACUGAC
.......(((.(((((((((.((.....))..(((..........))).....................)))))))))))).........((..(((((.....)))))..)) ( -25.00)
>consensus
UGCUUUCUUGUCUGUCAUUGAGCCGACAGCACGCGUACCUCCAG_______UAACAACAACCAUACUGACAAUGGCAGCAAUAUCAACAAGUUGGUCAUAACUCGUGACUGAC
.......(((.(((((((((.((.....)).((.(((..........................))))).)))))))))))).........((..(((((.....)))))..)) (-21.57 = -21.41 +  -0.16)

alignment

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secondary structure

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dotplot

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Window 0

Location 4,815,116 – 4,815,210
Length 94
Sequences 5
Columns 119
Reading direction forward
Mean pairwise identity 86.44
Mean single sequence MFE -29.68
Consensus MFE -20.58
Energy contribution -20.66
Covariance contribution 0.08
Combinations/Pair 1.05
Mean z-score -1.69
Structure conservation index 0.69
SVM decision value -0.02
SVM RNA-class probability 0.524532
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4815116 94 + 22224390
GGCAGCAAUAUCAACAAGUUGGUCAUAACUCGUGACUGACUACAAC--AGAC------------GGCCAAGAAGAGUCUGCGGGAAUUGGAUGUGAAUGUGGCUGUGG-----------
.(((((.((((..((((((..(((((.....)))))..))).(..(--((((------------...........)))))..)........)))..)))).)))))..----------- ( -30.10)
>DroSec_CAF1 21659 94 + 1
GGCAGCAAUAUCAACAAGUUGGUCAUAACUCGUGACUGACUACACC--AGAC------------GGCCAAGAAGAGGCUGCGGGAAUUGGAUGUGACUGUGGAUGUGG-----------
.((((..(((((....(((..(((((.....)))))..)))...((--.(.(------------((((.......)))))).)).....)))))..))))........----------- ( -30.50)
>DroSim_CAF1 20335 94 + 1
GGCAGCAAUAUCAACAAGUUGGUCAUAACUCGUGACUGACUACACC--AGAC------------GGCCAAGAAGAGGCUGCGGGAAAUGGAUGUGACUGUGGAUGUGG-----------
.((((..(((((....(((..(((((.....)))))..)))...((--.(.(------------((((.......)))))).)).....)))))..))))........----------- ( -30.50)
>DroEre_CAF1 31067 104 + 1
GGCAGCAAUAUCAACAAGUUGGUCAUAACUCGUGACUGACUACAC---AGAC------------GGCCAAGAAGAGUCUGCGGGAAUUGGAUGUGAUUGUGGAUGUGGAUGGGGAUGUG
.(((.(..((((.((((((..(((((.....)))))..))).(((---(..(------------(.((.(((....)))...))...))..))))........))).))))..).))). ( -28.60)
>DroYak_CAF1 22164 108 + 1
GGCAGCAAUAUCAACAAGUUGGUCAUAACUCGUGACUGACUACACCACAGACCAGAGAAGACCAGGCCCAGAAGAGUCUGCGGGAAUUGGAUGUGACUGUAGAUGUGA-----------
.......(((((.((((((..(((((.....)))))..)))....((((..((((......((((((.(....).))))).)....)))).))))..))).)))))..----------- ( -28.70)
>consensus
GGCAGCAAUAUCAACAAGUUGGUCAUAACUCGUGACUGACUACACC__AGAC____________GGCCAAGAAGAGUCUGCGGGAAUUGGAUGUGACUGUGGAUGUGG___________
.((((..(((((....(((..(((((.....)))))..))).........................((.((......))...)).....)))))..))))................... (-20.58 = -20.66 +   0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:17:41 2006