Locus 4593

Sequence ID 3L_DroMel_CAF1
Location 13,135,313 – 13,135,433
Length 120
Max. P 0.908169
window7196 window7197

overview

Window 6

Location 13,135,313 – 13,135,433
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 89.85
Mean single sequence MFE -25.91
Consensus MFE -19.51
Energy contribution -19.51
Covariance contribution -0.00
Combinations/Pair 1.07
Mean z-score -2.27
Structure conservation index 0.75
SVM decision value 1.06
SVM RNA-class probability 0.908169
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13135313 120 + 23771897
AUUAAUGCCAGCUAUGAAAAGCUUUUCGCACAGACAUUUUCCACCUCACCAUCGUCGUGCCGGGAAAAACGGCUCUUAAUGCCAACGCAAAAUUGCAUUUUCAGUGCAAAUCAAUAAGAC
......(((.(((......)))((..(((((.(((..................)))))).))..))....)))(((((.(((....)))...((((((.....)))))).....))))). ( -25.67)
>DroSec_CAF1 123107 107 + 1
AUUAAUGCCAGCUAUAAAAAGCUUUUCGCACGGACAUUUUCCACCUGAC-------------GGAAAAACGGCUCUUAAUGCCAACGCAAAAUUGCAUUUUCAGUGCGAAUCAAUAAGAC
.........((((......)))).((((((((((.....))).......-------------.(((((..(((.......)))...(((....))).))))).))))))).......... ( -25.70)
>DroSim_CAF1 122986 107 + 1
AUUAAUGCCAGCUAUAAAAAGCUUUUCGCACAGACAUUUUCCACCUGAC-------------GGAAAAACGGCUCUUAAUGCCAACGCAAAAUUGCAUUUUCAGUGCGAAUCAAUAAGAC
.........((((......)))).(((((((.....((((((.......-------------))))))..(((.......)))...(((....))).......))))))).......... ( -24.80)
>DroEre_CAF1 120014 118 + 1
AUUAAUGCCAGCUAUAAAAAGCUUUUCGCACAGACAUUUUCCGCCUCACCAUCCUCGGGCU-GGAA-AACGGCUCUUAAUGCCAACGCAAAAUUGCAUUUUCAGUGCAAAUCAAUAAGAC
......(((((((......)))).............((((((((((..........)))).-))))-)).)))(((((.(((....)))...((((((.....)))))).....))))). ( -27.30)
>DroYak_CAF1 124187 119 + 1
AUUAAUGCCGGCUAUAAAAAGCUUUUCGCACAGACAUUCUCCACCUCACCAUCCUUGGGCU-GGAAAAACGGCUCUUAAUGCCAACGCAAAAUUGCAUUUUCAGUGCAAAUCAAUAAGAC
......(((((((......))).................((((.((((.......)))).)-)))....))))(((((.(((....)))...((((((.....)))))).....))))). ( -26.10)
>consensus
AUUAAUGCCAGCUAUAAAAAGCUUUUCGCACAGACAUUUUCCACCUCACCAUC_U_G_GC__GGAAAAACGGCUCUUAAUGCCAACGCAAAAUUGCAUUUUCAGUGCAAAUCAAUAAGAC
......(((((((......)))).............((((((....................))))))..)))(((((.(((....)))...((((((.....)))))).....))))). (-19.51 = -19.51 +  -0.00)

alignment

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secondary structure

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dotplot

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Window 7

Location 13,135,313 – 13,135,433
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 89.85
Mean single sequence MFE -32.46
Consensus MFE -26.91
Energy contribution -26.71
Covariance contribution -0.20
Combinations/Pair 1.07
Mean z-score -1.65
Structure conservation index 0.83
SVM decision value 0.80
SVM RNA-class probability 0.853357
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13135313 120 - 23771897
GUCUUAUUGAUUUGCACUGAAAAUGCAAUUUUGCGUUGGCAUUAAGAGCCGUUUUUCCCGGCACGACGAUGGUGAGGUGGAAAAUGUCUGUGCGAAAAGCUUUUCAUAGCUGGCAUUAAU
(((.......(((((((((..((((((....))))))..)).....((.((((((((((..(((.......))).)).)))))))).))))))))).((((......)))))))...... ( -33.80)
>DroSec_CAF1 123107 107 - 1
GUCUUAUUGAUUCGCACUGAAAAUGCAAUUUUGCGUUGGCAUUAAGAGCCGUUUUUCC-------------GUCAGGUGGAAAAUGUCCGUGCGAAAAGCUUUUUAUAGCUGGCAUUAAU
(((.......(((((((.((.((((((....))))))(((.......)))..((((((-------------(.....)))))))..)).))))))).((((......)))))))...... ( -30.60)
>DroSim_CAF1 122986 107 - 1
GUCUUAUUGAUUCGCACUGAAAAUGCAAUUUUGCGUUGGCAUUAAGAGCCGUUUUUCC-------------GUCAGGUGGAAAAUGUCUGUGCGAAAAGCUUUUUAUAGCUGGCAUUAAU
(((.......(((((((.((.((((((....))))))(((.......)))..((((((-------------(.....)))))))..)).))))))).((((......)))))))...... ( -30.60)
>DroEre_CAF1 120014 118 - 1
GUCUUAUUGAUUUGCACUGAAAAUGCAAUUUUGCGUUGGCAUUAAGAGCCGUU-UUCC-AGCCCGAGGAUGGUGAGGCGGAAAAUGUCUGUGCGAAAAGCUUUUUAUAGCUGGCAUUAAU
(((.......(((((((....((((((....))))))((((((.....(((((-((((-(.((...)).))).)))))))..)))))).))))))).((((......)))))))...... ( -34.90)
>DroYak_CAF1 124187 119 - 1
GUCUUAUUGAUUUGCACUGAAAAUGCAAUUUUGCGUUGGCAUUAAGAGCCGUUUUUCC-AGCCCAAGGAUGGUGAGGUGGAGAAUGUCUGUGCGAAAAGCUUUUUAUAGCCGGCAUUAAU
(((.......(((((((....((((((....))))))((((((.....(((..((.((-(.((...)).))).))..)))..)))))).)))))))..(((......))).)))...... ( -32.40)
>consensus
GUCUUAUUGAUUUGCACUGAAAAUGCAAUUUUGCGUUGGCAUUAAGAGCCGUUUUUCC__GC_C_A_GAUGGUGAGGUGGAAAAUGUCUGUGCGAAAAGCUUUUUAUAGCUGGCAUUAAU
(((.......(((((((....((((((....))))))((((((....(((.........................)))....)))))).))))))).((((......)))))))...... (-26.91 = -26.71 +  -0.20)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:27:48 2006