Locus 3132

Sequence ID 2L_DroMel_CAF1
Location 8,918,369 – 8,918,485
Length 116
Max. P 0.836827
window4976 window4977

overview

Window 6

Location 8,918,369 – 8,918,463
Length 94
Sequences 5
Columns 94
Reading direction forward
Mean pairwise identity 97.02
Mean single sequence MFE -19.10
Consensus MFE -16.96
Energy contribution -17.12
Covariance contribution 0.16
Combinations/Pair 1.05
Mean z-score -1.49
Structure conservation index 0.89
SVM decision value 0.74
SVM RNA-class probability 0.836827
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8918369 94 + 22407834
GAGCCUGGCCAAAAGAUGAAAGGGUAAUAGAGUGGGGGGAUUGGCUGGGGAAACGAUCAAUACAAUCAAUUGGAAACGAUCAGCCGAAAGAAGA
...(((.((......((......))......)).)))...(((((((((....)...............(((....)))))))))))....... ( -19.90)
>DroSec_CAF1 128601 94 + 1
GAGCCUGGCCAAAAGAUGAAAGGGUAAUAGAGUGGGGGGAUUGGCUGGGGAAACGAUCAAUACAAUCAAUUGGAAACGAUCAGCCGAAAGAAGA
...(((.((......((......))......)).)))...(((((((((....)...............(((....)))))))))))....... ( -19.90)
>DroSim_CAF1 127597 94 + 1
GAGCCUGGCCAAAAGAUGAAAGGGUAAUAGAGUGGGGGGAUUGGCUGGGGAAACGAUCAAUACAAUCAAUUGGAAACGAUCAGCCGAAAGAAGA
...(((.((......((......))......)).)))...(((((((((....)...............(((....)))))))))))....... ( -19.90)
>DroEre_CAF1 136135 93 + 1
GAGCCUGGCCAAAAGAUGAAAGGGUAAUAGAGUGGGGG-AAUGGCUGUGGAAGCGAUCAAUACAAUCAAUUGGAAACGAUCAGUCGAAAGAAGA
((((((...((.....))...))))......(((...(-(.(.(((.....))).)))..)))..)).((((....))))...((....))... ( -16.00)
>DroYak_CAF1 132746 94 + 1
GAGCCUGGCCAAAAGAUGAAAGGGUAAUAGAGUGGGGGCACUGGCUGGGGAAACGAUCAAUACAAUCAAUUGGAAACGAUCAGUCGAAAGAAGA
...((..(((......(....)........((((....)))))))..)).....(((((((.......)))(....)))))..((....))... ( -19.80)
>consensus
GAGCCUGGCCAAAAGAUGAAAGGGUAAUAGAGUGGGGGGAUUGGCUGGGGAAACGAUCAAUACAAUCAAUUGGAAACGAUCAGCCGAAAGAAGA
...(((.((......((......))......)).)))...(((((((.(....)..............((((....)))))))))))....... (-16.96 = -17.12 +   0.16)

alignment

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secondary structure

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dotplot

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Window 7

Location 8,918,394 – 8,918,485
Length 91
Sequences 5
Columns 91
Reading direction forward
Mean pairwise identity 96.92
Mean single sequence MFE -23.88
Consensus MFE -19.46
Energy contribution -20.02
Covariance contribution 0.56
Combinations/Pair 1.05
Mean z-score -1.85
Structure conservation index 0.81
SVM decision value 0.53
SVM RNA-class probability 0.770132
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8918394 91 + 22407834
AAUAGAGUGGGGGGAUUGGCUGGGGAAACGAUCAAUACAAUCAAUUGGAAACGAUCAGCCGAAAGAAGACACCAAGUCCUUGCCAGUGAUG
.....(.(((.(((.(((((((((....)...............(((....))))))))))).....(((.....)))))).))).).... ( -24.40)
>DroSec_CAF1 128626 91 + 1
AAUAGAGUGGGGGGAUUGGCUGGGGAAACGAUCAAUACAAUCAAUUGGAAACGAUCAGCCGAAAGAAGACACCAAGUCCUUGCCAGUGAUG
.....(.(((.(((.(((((((((....)...............(((....))))))))))).....(((.....)))))).))).).... ( -24.40)
>DroSim_CAF1 127622 91 + 1
AAUAGAGUGGGGGGAUUGGCUGGGGAAACGAUCAAUACAAUCAAUUGGAAACGAUCAGCCGAAAGAAGACACCAAGUCCUUGCCAGUGAUG
.....(.(((.(((.(((((((((....)...............(((....))))))))))).....(((.....)))))).))).).... ( -24.40)
>DroEre_CAF1 136160 90 + 1
AAUAGAGUGGGGG-AAUGGCUGUGGAAGCGAUCAAUACAAUCAAUUGGAAACGAUCAGUCGAAAGAAGACACCAAGUCCUUGCCAGUGAUG
....(.(..((((-..(((.(((......(((((((.......)))(....)))))..((....))..))))))..))))..))....... ( -21.20)
>DroYak_CAF1 132771 91 + 1
AAUAGAGUGGGGGCACUGGCUGGGGAAACGAUCAAUACAAUCAAUUGGAAACGAUCAGUCGAAAGAAGACACCAAGUCCUUGCCAGUGAUG
.............(((((((.(((((...(((((((.......)))(....))))).(((.......)))......))))))))))))... ( -25.00)
>consensus
AAUAGAGUGGGGGGAUUGGCUGGGGAAACGAUCAAUACAAUCAAUUGGAAACGAUCAGCCGAAAGAAGACACCAAGUCCUUGCCAGUGAUG
.....(.(((.(((.(((((((.(....)..............((((....))))))))))).....(((.....)))))).))).).... (-19.46 = -20.02 +   0.56)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:45:04 2006