Locus 9213

Sequence ID 3R_DroMel_CAF1
Location 24,555,023 – 24,555,122
Length 99
Max. P 0.750969
window14738 window14739

overview

Window 8

Location 24,555,023 – 24,555,122
Length 99
Sequences 6
Columns 100
Reading direction forward
Mean pairwise identity 79.06
Mean single sequence MFE -30.80
Consensus MFE -18.91
Energy contribution -19.35
Covariance contribution 0.45
Combinations/Pair 1.22
Mean z-score -1.72
Structure conservation index 0.61
SVM decision value 0.45
SVM RNA-class probability 0.739583
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24555023 99 + 27905053
AAGCAUCCCGUCACAGGGCGGCAUUAGGCG-GCAGGACACUCUGGCAAAGUGAACUUCACUCCCCUUACGCGCCCAAUGUCCUUUAUUUGGAUGCUGCCA
.(((((((.(((....)))((((((.((((-.((((....)))).)..((((.....))))..........))).))))))........))))))).... ( -32.60)
>DroSec_CAF1 53234 99 + 1
AAGCAUCCCGACAGAGGGCGGCAUUAGGCG-GCAGGGCACUCUGGCCAAGUGAACUUCACUCCCCUUACGCGCCCAAUGUCCUUUAUUUGGAUGCUGCCA
..((..(((......)))..))....((((-((.((((.(...((...((((.....))))..))....).))))...((((.......)))))))))). ( -37.20)
>DroSim_CAF1 55050 100 + 1
AAGCAUCCCAACAGAGGGCGGCAUUAGGCGGGCUGGGCACUCUGGCCAAGUGAACUUCACUCCCCUUACGCGCCCAAUGUCCUUUAUUUGGAUGCUGCCA
.(((((((.((.((((((((......(((((((..(.....)..))).((((.....)))).........))))...)))))))).)).))))))).... ( -39.20)
>DroEre_CAF1 57673 99 + 1
AAACAUCCUGACAGAGGGUGGCAUUAGGCG-GCAGGACACUCCGGCCAAAUGAACUUAACUCCCUUUACACGCCACAUGUCCUUUAUUUGGAUGCUGCCA
...((((((.....))))))......((((-(((((.....))..(((((((((....((..................))..))))))))).))))))). ( -28.07)
>DroYak_CAF1 54487 99 + 1
AAACAUCCUGACAGAGGGCGGCAUUAGGCG-GCAGGACACUCCGGCCAAAUGAACUUUACUCCCCUUACACGCCCCAUGUCCUUUAUUUGGAUGCUGCCA
...(((((.((((..(((((((.....))(-((.((.....)).))).......................)))))..))))........)))))...... ( -29.70)
>DroAna_CAF1 54125 79 + 1
ACUCAC-AUGA-AAAGGACUGAA---------AAGGACACUUUGGUCGAGUGUGCUCUACGCC--------GCUCAAAAUCCUUUAUUUU--UGCUGCCG
......-....-((((((((...---------.))(((......)))(((((.((.....)))--------))))....)))))).....--........ ( -18.00)
>consensus
AAGCAUCCCGACAGAGGGCGGCAUUAGGCG_GCAGGACACUCUGGCCAAGUGAACUUCACUCCCCUUACGCGCCCAAUGUCCUUUAUUUGGAUGCUGCCA
................(((((((((........((((((....(((.........................)))...)))))).......))))))))). (-18.91 = -19.35 +   0.45)

alignment

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secondary structure

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dotplot

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Window 9

Location 24,555,023 – 24,555,122
Length 99
Sequences 6
Columns 100
Reading direction reverse
Mean pairwise identity 79.06
Mean single sequence MFE -33.50
Consensus MFE -23.61
Energy contribution -25.58
Covariance contribution 1.97
Combinations/Pair 1.17
Mean z-score -1.39
Structure conservation index 0.70
SVM decision value 0.48
SVM RNA-class probability 0.750969
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24555023 99 - 27905053
UGGCAGCAUCCAAAUAAAGGACAUUGGGCGCGUAAGGGGAGUGAAGUUCACUUUGCCAGAGUGUCCUGC-CGCCUAAUGCCGCCCUGUGACGGGAUGCUU
....(((((((..(((..((.(((((((((.(((.(((.((..(((....)))..).....).))))))-)))))))))))....)))....))))))). ( -37.00)
>DroSec_CAF1 53234 99 - 1
UGGCAGCAUCCAAAUAAAGGACAUUGGGCGCGUAAGGGGAGUGAAGUUCACUUGGCCAGAGUGCCCUGC-CGCCUAAUGCCGCCCUCUGUCGGGAUGCUU
....(((((((..(((.(((.(((((((((.(((.((((((((.....))))).((....)).))))))-)))))))))....))).)))..))))))). ( -40.90)
>DroSim_CAF1 55050 100 - 1
UGGCAGCAUCCAAAUAAAGGACAUUGGGCGCGUAAGGGGAGUGAAGUUCACUUGGCCAGAGUGCCCAGCCCGCCUAAUGCCGCCCUCUGUUGGGAUGCUU
....(((((((.((((.(((.((((((((.(....)(((((((.....)))).(((......)))...)))))))))))....))).)))).))))))). ( -39.10)
>DroEre_CAF1 57673 99 - 1
UGGCAGCAUCCAAAUAAAGGACAUGUGGCGUGUAAAGGGAGUUAAGUUCAUUUGGCCGGAGUGUCCUGC-CGCCUAAUGCCACCCUCUGUCAGGAUGUUU
....(((((((..(((.(((....(((((((....((((((.....)))....(((.((.....)).))-).))).)))))))))).)))..))))))). ( -32.60)
>DroYak_CAF1 54487 99 - 1
UGGCAGCAUCCAAAUAAAGGACAUGGGGCGUGUAAGGGGAGUAAAGUUCAUUUGGCCGGAGUGUCCUGC-CGCCUAAUGCCGCCCUCUGUCAGGAUGUUU
....(((((((........((((.((((((.(((..(((...(((.....)))(((.((.....)).))-).)))..))))))))).)))).))))))). ( -36.00)
>DroAna_CAF1 54125 79 - 1
CGGCAGCA--AAAAUAAAGGAUUUUGAGC--------GGCGUAGAGCACACUCGACCAAAGUGUCCUU---------UUCAGUCCUUU-UCAU-GUGAGU
......((--.....((((((((..(((.--------(((.....)).).)))(((......)))...---------...))))))))-....-.))... ( -15.40)
>consensus
UGGCAGCAUCCAAAUAAAGGACAUUGGGCGCGUAAGGGGAGUGAAGUUCACUUGGCCAGAGUGUCCUGC_CGCCUAAUGCCGCCCUCUGUCAGGAUGCUU
....(((((((........((((..(((((.(((..(((.....((..(((((.....)))))..)).....)))..))))))))..)))).))))))). (-23.61 = -25.58 +   1.97)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:29:07 2006