Locus 1631

Sequence ID 3L_DroMel_CAF1
Location 4,756,515 – 4,756,618
Length 103
Max. P 0.935647
window2524 window2525

overview

Window 4

Location 4,756,515 – 4,756,618
Length 103
Sequences 5
Columns 114
Reading direction forward
Mean pairwise identity 75.86
Mean single sequence MFE -21.10
Consensus MFE -15.22
Energy contribution -15.26
Covariance contribution 0.04
Combinations/Pair 1.05
Mean z-score -1.14
Structure conservation index 0.72
SVM decision value -0.03
SVM RNA-class probability 0.518521
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4756515 103 + 23771897
AUGCCCGCGUUACAGAUAAAACAAAAAUUAUUUGCAUUUCACCUGCAUGUUGGCACCUGAUUGCUGGUGGGCUGUA-GCUACCCCACUGAAAACAUUCU----------CCACC
..((((((.....((((((........))))))(((..(((..(((......)))..))).)))..))))))....-......................----------..... ( -20.40)
>DroSec_CAF1 19240 80 + 1
AUACCCGCGUUACAGAUAAAACAAAAAUUAUUUGCAUUUCACCUGCAUGUUGGCACCUGAUUGCUGGUGGGCUGUA----------------------------------CACC
((((((((.....((((((........))))))(((..(((..(((......)))..))).)))..))))).))).----------------------------------.... ( -16.80)
>DroSim_CAF1 16582 80 + 1
AUACCCGCGUUACAGAUAAAACAAAAAUUAUUUGCAUUUCACCUGCAUGUUGGCACCUGAUUGCUGGUGGGCUGUA----------------------------------CACC
((((((((.....((((((........))))))(((..(((..(((......)))..))).)))..))))).))).----------------------------------.... ( -16.80)
>DroEre_CAF1 8467 108 + 1
AUGCACGCGUUACAGAUAAAACAAAAAUUAUUUGCAUUUCGCCUGCAAGUUGGCACCUGAUUGCUGGUGGGACGU------AACCACUAAAAACAUUCCCUAGCACCAGCCACC
.((((.(((...(((((((........))))))).....))).))))...((((...((..((((((.((((.((------...........)).)))))))))).)))))).. ( -28.00)
>DroYak_CAF1 15119 114 + 1
AUACCCGCGCUACAGAUAAAACAAAAAUUAUUUGCAUUUCACCUGCAUGUUGGCACCUGAUUGCUGGUGGGCUGGAAACAAACCCACAAAACACAUUCCCUAACACCAGCCAAC
.((((.((....(((((((........)))))))....(((..(((......)))..)))..)).))))((((((..............................))))))... ( -23.51)
>consensus
AUACCCGCGUUACAGAUAAAACAAAAAUUAUUUGCAUUUCACCUGCAUGUUGGCACCUGAUUGCUGGUGGGCUGUA_______CCAC__AA_ACAUUC___________CCACC
...(((((.....((((((........))))))(((..(((..(((......)))..))).)))..)))))........................................... (-15.22 = -15.26 +   0.04)

alignment

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secondary structure

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dotplot

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Window 5

Location 4,756,515 – 4,756,618
Length 103
Sequences 5
Columns 114
Reading direction reverse
Mean pairwise identity 75.86
Mean single sequence MFE -29.56
Consensus MFE -19.20
Energy contribution -19.68
Covariance contribution 0.48
Combinations/Pair 1.04
Mean z-score -1.91
Structure conservation index 0.65
SVM decision value 1.25
SVM RNA-class probability 0.935647
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4756515 103 - 23771897
GGUGG----------AGAAUGUUUUCAGUGGGGUAGC-UACAGCCCACCAGCAAUCAGGUGCCAACAUGCAGGUGAAAUGCAAAUAAUUUUUGUUUUAUCUGUAACGCGGGCAU
(((((----------.(((....))).((((.....)-)))...))))).........(((((..(.((((((((((..(((((.....)))))))))))))))..)..))))) ( -32.80)
>DroSec_CAF1 19240 80 - 1
GGUG----------------------------------UACAGCCCACCAGCAAUCAGGUGCCAACAUGCAGGUGAAAUGCAAAUAAUUUUUGUUUUAUCUGUAACGCGGGUAU
((((----------------------------------.......)))).........(((((..(.((((((((((..(((((.....)))))))))))))))..)..))))) ( -22.10)
>DroSim_CAF1 16582 80 - 1
GGUG----------------------------------UACAGCCCACCAGCAAUCAGGUGCCAACAUGCAGGUGAAAUGCAAAUAAUUUUUGUUUUAUCUGUAACGCGGGUAU
((((----------------------------------.......)))).........(((((..(.((((((((((..(((((.....)))))))))))))))..)..))))) ( -22.10)
>DroEre_CAF1 8467 108 - 1
GGUGGCUGGUGCUAGGGAAUGUUUUUAGUGGUU------ACGUCCCACCAGCAAUCAGGUGCCAACUUGCAGGCGAAAUGCAAAUAAUUUUUGUUUUAUCUGUAACGCGUGCAU
((((.((((((((.((((.(((...........------)))))))...))).))))).))))....((((.(((...((((.((((........)))).)))).))).)))). ( -34.10)
>DroYak_CAF1 15119 114 - 1
GUUGGCUGGUGUUAGGGAAUGUGUUUUGUGGGUUUGUUUCCAGCCCACCAGCAAUCAGGUGCCAACAUGCAGGUGAAAUGCAAAUAAUUUUUGUUUUAUCUGUAGCGCGGGUAU
(((((.(((.(((.(((((((..((.....))..))))))))))))))))))......(((((..(.((((((((((..(((((.....)))))))))))))))..)..))))) ( -36.70)
>consensus
GGUGG___________GAAUGU_UU__GUGG_______UACAGCCCACCAGCAAUCAGGUGCCAACAUGCAGGUGAAAUGCAAAUAAUUUUUGUUUUAUCUGUAACGCGGGUAU
..........................................(((((((........)))((.....((((((((((..(((((.....)))))))))))))))..)))))).. (-19.20 = -19.68 +   0.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:12:24 2006