Locus 9015

Sequence ID 3R_DroMel_CAF1
Location 24,163,570 – 24,163,703
Length 133
Max. P 0.904757
window14443 window14444

overview

Window 3

Location 24,163,570 – 24,163,663
Length 93
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 78.61
Mean single sequence MFE -30.98
Consensus MFE -26.68
Energy contribution -26.40
Covariance contribution -0.28
Combinations/Pair 1.14
Mean z-score -1.62
Structure conservation index 0.86
SVM decision value 1.04
SVM RNA-class probability 0.904757
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24163570 93 - 27905053
UUGUACGAGCACAAGUCGCUGCUCAUUAUGGGCAGGGGCUUCAACUUCGCCACCUGUUUGGAGGGCGCACUGGUAA---------------UCCAUUUGAU-AAUUU-GA----------
((((.(((((..(((((.((((((.....)))))).))))).......(((.((.....))..)))))..(((...---------------.))).)))))-))...-..---------- ( -28.10)
>DroSim_CAF1 4248 90 - 1
UUGUACCAGCACAAGUCGCUGCUCAUCAUGGGCAGGGGCUUCAACUUCGCCACCUGUUUGGAGGGCGCACUGGUAA---------------UCCAU---AU-AAUUU-GA----------
...((((((...(((((.((((((.....)))))).)))))......((((.((.....))..))))..)))))).---------------.....---..-.....-..---------- ( -32.00)
>DroEre_CAF1 17738 95 - 1
CUGUACCAGCACAAGUCGCUGCUCAUCAUGGGCAGGGGCUUCAAUUUCGCCACCUGCUUGGAGGGAGCUCUGGUAA---------------UCCAUUUAAUCAAUUUUAA----------
...((((((...(((((.((((((.....)))))).))))).......((..(((......)))..)).)))))).---------------...................---------- ( -29.70)
>DroYak_CAF1 20995 109 - 1
UUGUACCAGCACAAGUCGCUGCUCAUCAUGGGCAGAGGCUUCAAUUUCGCCACCUGCUUGGAGGGAGCACUGGUAAGCGAUGAAUGUACCUUCCAUUUCAUCAAUUU-CA----------
...((((((...(((((.((((((.....)))))).))))).......((..(((......)))..)).))))))...((((((((.......)).)))))).....-..---------- ( -34.40)
>DroAna_CAF1 15940 100 - 1
CUGUAUCAGCACAAGUCGCUGCUCAUCAUGGGCAGGGGUUUCAACUUUGCCACCUGUUUGGAGGGAGCAUUGGUAA---------------GGGAU---CU-AUUGU-GGUUCACGGACA
((((...(.(((((....((((((.....))))))((((..(.(((.(((..(((......)))..)))..)))..---------------)..))---))-.))))-).)..))))... ( -30.70)
>consensus
UUGUACCAGCACAAGUCGCUGCUCAUCAUGGGCAGGGGCUUCAACUUCGCCACCUGUUUGGAGGGAGCACUGGUAA_______________UCCAUUU_AU_AAUUU_GA__________
...((((((...(((((.((((((.....)))))).))))).......((..(((......)))..)).))))))............................................. (-26.68 = -26.40 +  -0.28)

alignment

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secondary structure

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dotplot

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Window 4

Location 24,163,587 – 24,163,703
Length 116
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 89.46
Mean single sequence MFE -44.42
Consensus MFE -35.02
Energy contribution -35.02
Covariance contribution -0.00
Combinations/Pair 1.17
Mean z-score -1.62
Structure conservation index 0.79
SVM decision value 0.39
SVM RNA-class probability 0.718808
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24163587 116 - 27905053
CCUCAAGCUGAACUCGCAGGUGCAGCAGCUUGCCAAGGAGUUGUACGAGCACAAGUCGCUGCUCAUUAUGGGCAGGGGCUUCAACUUCGCCACCUGUUUGGAGGGCGCACUGGUAA----
......((((.(((....))).))))....(((((.(((((((.........(((((.((((((.....)))))).))))))))))))(((.((.....))..)))....))))).---- ( -42.60)
>DroSim_CAF1 4262 116 - 1
CCUCAAGCUGAACUCGCAGGUGCAGCAGCUUGCCAAGGAGUUGUACCAGCACAAGUCGCUGCUCAUCAUGGGCAGGGGCUUCAACUUCGCCACCUGUUUGGAGGGCGCACUGGUAA----
((((((((((..((.((....)))))))))))...))).....((((((...(((((.((((((.....)))))).)))))......((((.((.....))..))))..)))))).---- ( -44.70)
>DroEre_CAF1 17757 116 - 1
CCUGAAGCUGAACUCGCAGGUUCAGCAGCUUGCGAAGGAGCUGUACCAGCACAAGUCGCUGCUCAUCAUGGGCAGGGGCUUCAAUUUCGCCACCUGCUUGGAGGGAGCUCUGGUAA----
(((((.((((((((....))))))))(((..((((..(.((((...)))).)...)))).)))..))).))((((((((.........))).)))))(..(((....)))..)...---- ( -47.00)
>DroYak_CAF1 21024 120 - 1
CCUGAACCUGAACUCGCAGGUGCAGCAGCUUGCCAAGGAGUUGUACCAGCACAAGUCGCUGCUCAUCAUGGGCAGAGGCUUCAAUUUCGCCACCUGCUUGGAGGGAGCACUGGUAAGCGA
.(((.(((((......))))).)))..((((((((.(((((((.........(((((.((((((.....)))))).))))))))))))((..(((......)))..))..)))))))).. ( -48.10)
>DroAna_CAF1 15964 116 - 1
CCUCCAAUUGAACUCACAGGUCCAGGCGUUGGCCAAGGAGCUGUAUCAGCACAAGUCGCUGCUCAUCAUGGGCAGGGGUUUCAACUUUGCCACCUGUUUGGAGGGAGCAUUGGUAA----
(((((((.(((....((((.(((.(((....)))..))).))))..((((.......))))....)))..(((((((.......)))))))......)))))))............---- ( -39.70)
>consensus
CCUCAAGCUGAACUCGCAGGUGCAGCAGCUUGCCAAGGAGUUGUACCAGCACAAGUCGCUGCUCAUCAUGGGCAGGGGCUUCAACUUCGCCACCUGUUUGGAGGGAGCACUGGUAA____
((((((((((.(((....)))....)))))))...))).....((((((...(((((.((((((.....)))))).))))).......((..(((......)))..)).))))))..... (-35.02 = -35.02 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:24:49 2006