Locus 2758

Sequence ID 2L_DroMel_CAF1
Location 7,777,385 – 7,777,503
Length 118
Max. P 0.907095
window4380 window4381

overview

Window 0

Location 7,777,385 – 7,777,481
Length 96
Sequences 6
Columns 96
Reading direction forward
Mean pairwise identity 77.87
Mean single sequence MFE -38.67
Consensus MFE -21.14
Energy contribution -24.50
Covariance contribution 3.36
Combinations/Pair 1.23
Mean z-score -2.22
Structure conservation index 0.55
SVM decision value 1.05
SVM RNA-class probability 0.907095
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7777385 96 + 22407834
CUCCAGUUGCGGCUGAUGGCUUUGCUGUGGCAGGUGAUGAUGGUGAUGCUGGGUGAGCAGCUUCUUCGGAGGCGACUUGGCGCUCACCUGCACCGU
.....((..((((..........))))..)).((((.....((((((((..(((.....(((((....))))).)))..))).)))))..)))).. ( -42.60)
>DroPse_CAF1 29330 84 + 1
CUGCUGUUGCGGCUGCUG---UGGCUGCAGAAGAUGGUGAUGAUGAUGUU---------GCUUCUUGGACGGCAGUUUGGCAUUCACUUGCACCGU
((((((((((((((....---.))))))..((((.((..((......)).---------.)))))).))))))))....(((......)))..... ( -28.80)
>DroSec_CAF1 24762 96 + 1
CUCCAGGUGAGGCUGAGAGCUUUGCUGUGGAAGAUGGUGAUGGUGAUGCUGGGUGAGCAGCUUCUUCGGAGGCGACUUGGCGCUGACCUGCACCGU
.((((((..((((.....))))..)).))))..((((((..(((.((((..(((.....(((((....))))).)))..))).).)))..)))))) ( -42.30)
>DroSim_CAF1 27843 96 + 1
CUCCAGUUGGGUCUGAGGACUUUGCUGUGGCAGAUGGUGAUGGUGAUGCUGGGUGAGCAGCUUCUUCGGAGGCGACUUGGCGCUCACCUGCACCGU
(..((((..((((....))))..))))..)...((((((..((((((((..(((.....(((((....))))).)))..))).)))))..)))))) ( -43.90)
>DroYak_CAF1 25475 96 + 1
CUCCAGUUGCUGCUGGGGGCUUUGCUGUGGCAGGUGGUGAUGGUGGUGCUGGGUGAGCAGCUUCUUUGGAGGCGACUUGGCGCUCACCUGCACCGU
(((((((....)))))))((((.((....))))))((((..((((((((..(((.....(((((....))))).)))..)))).))))..)))).. ( -45.00)
>DroPer_CAF1 29409 84 + 1
CUGCUGUUGCGGCUGCUG---CGGCUGCAGAAGAUGGUGAUGAUGAUGUU---------GCUUCUUGGACGGCAGUUUGGCAUUCACUUGCACCGU
(((((((((((((((...---)))))))..((((.((..((......)).---------.)))))).))))))))....(((......)))..... ( -29.40)
>consensus
CUCCAGUUGCGGCUGAGGGCUUUGCUGUGGAAGAUGGUGAUGGUGAUGCUGGGUGAGCAGCUUCUUCGGAGGCGACUUGGCGCUCACCUGCACCGU
.......((((((..........))))))....((((((..(((((((((((((.....(((((....))))).)))))))).)))))..)))))) (-21.14 = -24.50 +   3.36)

alignment

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secondary structure

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dotplot

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Window 1

Location 7,777,410 – 7,777,503
Length 93
Sequences 6
Columns 93
Reading direction forward
Mean pairwise identity 84.73
Mean single sequence MFE -42.38
Consensus MFE -30.82
Energy contribution -31.52
Covariance contribution 0.70
Combinations/Pair 1.29
Mean z-score -2.51
Structure conservation index 0.73
SVM decision value 0.28
SVM RNA-class probability 0.666607
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7777410 93 + 22407834
UGUGGCAGGUGAUGAUGGUGAUGCUGGGUGAGCAGCUUCUUCGGAGGCGACUUGGCGCUCACCUGCACCGUGUCGCCAUCUACGUCCUCCUCG
.(.((.(((((..((((((((((((((((((((.(((((....)))))(......))))))))))....)))))))))))..)).))))).). ( -44.90)
>DroGri_CAF1 32388 87 + 1
UGCUGAUGAUGAUGAUGGUGGGCCGGGGUGG---GCUUCUUGGGCGGCUGUUUGGCAUUCACGAGCACCGUAUCAUCCUG---GUCAUCCUGA
....((((((.(.((((((...((((((...---...))))))((((.((((((.......)))))))))))))))).).---)))))).... ( -31.40)
>DroSec_CAF1 24787 93 + 1
UGUGGAAGAUGGUGAUGGUGAUGCUGGGUGAGCAGCUUCUUCGGAGGCGACUUGGCGCUGACCUGCACCGUGUCGCCAUCUACGUCCUCCUCG
.(.(((.((((..(((((((((((.....(((..(((((....)))))..)))((.((......)).)))))))))))))..)))).))).). ( -44.30)
>DroSim_CAF1 27868 93 + 1
UGUGGCAGAUGGUGAUGGUGAUGCUGGGUGAGCAGCUUCUUCGGAGGCGACUUGGCGCUCACCUGCACCGUGUCGCCAUCUACGUCCUCCUCG
.(.((..((((..((((((((((((((((((((.(((((....)))))(......))))))))))....)))))))))))..))))..)).). ( -45.80)
>DroEre_CAF1 24870 93 + 1
UGUGGCAGGUGGUGAUGGUGGUGCUGGGUGAGCAGCUUCUUGGGCGGCGACUUGGCGCUCACCUGCACCGUGUCGCCAUCGACGUCCUCCUCG
.(.((.(((((.((((((((((((.((((((((.(((.....))).((......))))))))))))))).....))))))).)).))))).). ( -43.90)
>DroYak_CAF1 25500 93 + 1
UGUGGCAGGUGGUGAUGGUGGUGCUGGGUGAGCAGCUUCUUUGGAGGCGACUUGGCGCUCACCUGCACCGUGUCCCCAUCGACAUCCUCCUCG
.(.((.(((((.((((((((((((.((((((((.(((((....)))))(......))))))))))))))).....)))))).)).))))).). ( -44.00)
>consensus
UGUGGCAGAUGGUGAUGGUGAUGCUGGGUGAGCAGCUUCUUCGGAGGCGACUUGGCGCUCACCUGCACCGUGUCGCCAUCUACGUCCUCCUCG
.(.((..((((..((((((((..((((((((((.(((...(((....)))...))))))))))))....)..))))))))..))))..)).). (-30.82 = -31.52 +   0.70)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:35:28 2006