Locus 5155

Sequence ID 3L_DroMel_CAF1
Location 14,160,289 – 14,160,438
Length 149
Max. P 0.985554
window8155 window8156

overview

Window 5

Location 14,160,289 – 14,160,398
Length 109
Sequences 5
Columns 117
Reading direction reverse
Mean pairwise identity 87.91
Mean single sequence MFE -36.73
Consensus MFE -28.12
Energy contribution -28.40
Covariance contribution 0.28
Combinations/Pair 1.14
Mean z-score -2.81
Structure conservation index 0.77
SVM decision value 2.01
SVM RNA-class probability 0.985554
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14160289 109 - 23771897
GGGGCGGAAGAAAACCCGGCAGAUUUCGUAGACUCGUCUGCGAGAUCUU-AAGGAAAGACUGAGGCAGGUCAAGAAAAACAGGCCGGAAAACACAGUUC-------UGGCUAGAGAG
(((.(....)....)))...((((((((((((....)))))))))))).-.......((((......))))..........((((((((.......)))-------)))))...... ( -37.40)
>DroSec_CAF1 157925 115 - 1
GGGGCGGAAGAAAACCCGGCAGAUUUCGUAGACUCGUCUGCGAGAUCUU-AAG-GAAGACUGAGGCAGGUCAAGAAAAUCAGGUCGAAAAACACAGUUCUGGGUUCUGGCUAGAGAG
.((.((((.....((((((.((((((((((((....)))))))))))).-...-...(((((.(...(..(..........)..)......).))))))))))))))).))...... ( -34.60)
>DroSim_CAF1 161087 109 - 1
GGGGCGGAAGAAAACCCGGCAGAUUUCGUAGACGCGUCUACGAGAUCUU-AAGGGAAGACUGAGGCAGGUCAAGAAAAUCAGGCCGGAAAACACAGUUC-------UGGCUGGAGAG
....(....)....(((...((((((((((((....)))))))))))).-..)))..((((......)))).......((.((((((((.......)))-------))))).))... ( -39.60)
>DroEre_CAF1 158855 107 - 1
---GCGGAAGAAAAGCCGGCAGAUUUCGUAGACUUGUCUGCGAAAUCUGAAAGGGAAGACUGAGGCAGGUCAGGAAAAUCAGCCCGGAAAACACAGUUC-------UGGCUAGAGGG
---.(....)...(((((((((((((((((((....)))))))))))))...(((..((((((......)))).....))..))).............)-------)))))...... ( -36.50)
>DroYak_CAF1 165719 110 - 1
GGUGCGGAAGAAAAGCCGGCAGAUUCCGUAGACUUGUCUGCGAGAUCGCGAAGGGAAGACUGAGGCAGGUCAGGAAAAUCAGGCCGGAAAACACAGUUU-------UGGCUCGAGGG
.(.((.((((.....(((((.((((((...((((((((((((....)))..((......)).))))))))).)))..)))..))))).........)))-------).)).)..... ( -35.54)
>consensus
GGGGCGGAAGAAAACCCGGCAGAUUUCGUAGACUCGUCUGCGAGAUCUU_AAGGGAAGACUGAGGCAGGUCAAGAAAAUCAGGCCGGAAAACACAGUUC_______UGGCUAGAGAG
(((.(....)....)))(((.(((((((((((....)))))))))))..........(((((.(...((((..........))))......).)))))..........)))...... (-28.12 = -28.40 +   0.28)

alignment

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secondary structure

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dotplot

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Window 6

Location 14,160,322 – 14,160,438
Length 116
Sequences 5
Columns 117
Reading direction reverse
Mean pairwise identity 82.96
Mean single sequence MFE -34.54
Consensus MFE -24.68
Energy contribution -25.08
Covariance contribution 0.40
Combinations/Pair 1.23
Mean z-score -2.39
Structure conservation index 0.71
SVM decision value 1.38
SVM RNA-class probability 0.948678
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14160322 116 - 23771897
CUUAUUUGAUGGGUGUGUAGGGAGCAGGGAGGAGGAGGAGGGGGCGGAAGAAAACCCGGCAGAUUUCGUAGACUCGUCUGCGAGAUCUU-AAGGAAAGACUGAGGCAGGUCAAGAAA
....((((((..((.(.(((...................(((..(....)....)))...((((((((((((....)))))))))))).-.........)))).))..))))))... ( -31.70)
>DroSec_CAF1 157965 112 - 1
CUUAUUUGAUGGGUGGGUAGGGAGCAGGGAGCAGGAG---GGGGCGGAAGAAAACCCGGCAGAUUUCGUAGACUCGUCUGCGAGAUCUU-AAG-GAAGACUGAGGCAGGUCAAGAAA
....((((((..((...(((..........((....(---((..(....)....))).))((((((((((((....)))))))))))).-...-.....)))..))..))))))... ( -33.50)
>DroSim_CAF1 161120 114 - 1
CUUAUUUGAUGGGUG--CAGUGAGCAGGGAGGAGGAGGAAGGGGCGGAAGAAAACCCGGCAGAUUUCGUAGACGCGUCUACGAGAUCUU-AAGGGAAGACUGAGGCAGGUCAAGAAA
....((((((..((.--((((.......................(....)....(((...((((((((((((....)))))))))))).-..)))...))))..))..))))))... ( -34.60)
>DroEre_CAF1 158888 109 - 1
CUUGUUUGUUGGGCGGGCAGGGCGAAGGC----UGGGGG----GCGGAAGAAAAGCCGGCAGAUUUCGUAGACUUGUCUGCGAAAUCUGAAAGGGAAGACUGAGGCAGGUCAGGAAA
((((((((((..((.(((..(((....))----).....----.(....)....))).))((((((((((((....))))))))))))...............)))))).))))... ( -39.30)
>DroYak_CAF1 165752 113 - 1
CUUAUUCGUUGGAUGGGCAGGGCGGAGAA----UGAGGGGGGUGCGGAAGAAAAGCCGGCAGAUUCCGUAGACUUGUCUGCGAGAUCGCGAAGGGAAGACUGAGGCAGGUCAGGAAA
((((((.....))))))....((((((..----((..((.....(....).....))..))..)))))).((((((((((((....)))..((......)).)))))))))...... ( -33.60)
>consensus
CUUAUUUGAUGGGUGGGCAGGGAGCAGGGAG_AGGAGGA_GGGGCGGAAGAAAACCCGGCAGAUUUCGUAGACUCGUCUGCGAGAUCUU_AAGGGAAGACUGAGGCAGGUCAAGAAA
....((((((..((...(((....................(((.(....)....)))....(((((((((((....)))))))))))............)))..))..))))))... (-24.68 = -25.08 +   0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:43:12 2006