Locus 7449

Sequence ID 2L_DroMel_CAF1
Location 20,671,386 – 20,671,549
Length 163
Max. P 0.935985
window11978 window11979

overview

Window 8

Location 20,671,386 – 20,671,479
Length 93
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 79.79
Mean single sequence MFE -23.65
Consensus MFE -15.17
Energy contribution -14.78
Covariance contribution -0.38
Combinations/Pair 1.36
Mean z-score -1.41
Structure conservation index 0.64
SVM decision value 0.08
SVM RNA-class probability 0.575115
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20671386 93 + 22407834
CGAU----GUCUAUCAGAUA--------GACAUUUGUG------------AUAGCGUCUAUAGGUUUCACCUCUCUU-UCUGCUUUCUGCAU--UUCUAGUAGUAGGCGCAUAAGUGGGC
.(((----(.((((((.(..--------......).))------------))))))))............(((.(((-..(((((.((((..--.....)))).)))))...))).))). ( -23.40)
>DroSec_CAF1 24283 93 + 1
CGAU----GUCUAUCAGAUA--------GACAUUUGUC------------AUAGCGUCUAUAGGUUUCACCUCUCUU-UCUGCUAUCUGCAU--UUCUAGUAGUAGGCGCAUAAUUGGGC
.(((----((((((...)))--------))))))....------------...(((((((((((.....))).....-..(((.....))).--........)))))))).......... ( -23.30)
>DroSim_CAF1 24586 93 + 1
CGAU----GUCUAUCAGAUA--------GACAUUUGUC------------AUAGCGUCUAUAGGUUUCACCUCUCUU-UCUGCUUUCUGCAU--UUCUAGUAGUAGGCGCAUAAUUGGGC
.(((----((((((...)))--------))))))....------------...(((((((((((.....))).....-..(((.....))).--........)))))))).......... ( -23.30)
>DroEre_CAF1 23945 101 + 1
CGAU----AUCUAUCAGAUAUCGGAUAUGACAUUUGUC------------AUAGCGUCUAUAGGUUUCACCUCUCCU-UCUGCU-UCUGCAUC-UCCUAGUAGUGGGCGCAUAGUUGGGA
((((----(((.....)))))))..((((((....)))------------)))(((((((((((.....))).....-..(((.-...)))..-........)))))))).......... ( -29.70)
>DroYak_CAF1 23787 87 + 1
CGAU----AUCUAUUAGAUA--------GACAUUUCUC------------AUAGUGUCUAUAGGUUUCACCU--CCU-UCUGCUUUCUGCAU--UACUAGUAGUAGGCGCAU----GGGU
.((.----(((((.....((--------((((((....------------..))))))))))))).))....--(((-..(((((.((((..--.....)))).)))))...----))). ( -22.40)
>DroAna_CAF1 21940 112 + 1
CGGUACUCAUCUAUCAGAUA--------GAUAUAUGUUAGGUGUAUACAUAUAGCGUCUUUAGGUUUCACCUCCAUUCUCUGUGUUCUAUCUCAUUCUAGUAGUAGGCGCAUAAUUAGGU
.(((....(((((..((((.--------..(((((((.........)))))))..)))).)))))...))).((......(((((.((((..(......)..)))))))))......)). ( -19.80)
>consensus
CGAU____AUCUAUCAGAUA________GACAUUUGUC____________AUAGCGUCUAUAGGUUUCACCUCUCUU_UCUGCUUUCUGCAU__UUCUAGUAGUAGGCGCAUAAUUGGGC
........(((((...............(((....)))...............(((((((((((.....)))........(((.....)))...........)))))))).....))))) (-15.17 = -14.78 +  -0.38)

alignment

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secondary structure

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dotplot

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Window 9

Location 20,671,441 – 20,671,549
Length 108
Sequences 3
Columns 108
Reading direction forward
Mean pairwise identity 94.41
Mean single sequence MFE -30.77
Consensus MFE -30.54
Energy contribution -30.10
Covariance contribution -0.44
Combinations/Pair 1.06
Mean z-score -1.99
Structure conservation index 0.99
SVM decision value 1.25
SVM RNA-class probability 0.935985
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20671441 108 + 22407834
UGCUUUCUGCAUUUCUAGUAGUAGGCGCAUAAGUGGGCUGGAUAUACAUAGCUAAUGUACAUACAUAGCUUAGGUUAUCUAUUGUGUGGUUGGGGGUGUAGUGGGAAA
..((..((((((..((((.....(((.((....)).)))(((((.((..(((((.(((....))))))))...))))))).........))))..))))))..))... ( -30.90)
>DroSec_CAF1 24338 106 + 1
UGCUAUCUGCAUUUCUAGUAGUAGGCGCAUAAUUGGGCUGGAUAUGCAUAGCUUAUGUA--UCCAUAGCUUAGGUUAUCUAUUGUGGGGUUGGGGGUGCAGUGGGAAA
..(((.((((((..((((.....(((.((....)).)))(((((.((..((((.(((..--..)))))))...))))))).........))))..))))))))).... ( -31.40)
>DroSim_CAF1 24641 106 + 1
UGCUUUCUGCAUUUCUAGUAGUAGGCGCAUAAUUGGGCUGGAUAUGCAUAGCUUAUGUA--UCCAUAGCUUAGGUUAUCUAUUGUGUGGUUGGGGGUGUAGUGGGAAA
..((..((((((..(((......(.(((((((((((((((...(((((((...))))))--)...)))))))........)))))))).))))..))))))..))... ( -30.00)
>consensus
UGCUUUCUGCAUUUCUAGUAGUAGGCGCAUAAUUGGGCUGGAUAUGCAUAGCUUAUGUA__UCCAUAGCUUAGGUUAUCUAUUGUGUGGUUGGGGGUGUAGUGGGAAA
..((..((((((..((((.....(((.((....)).)))(((((.((..((((.(((......)))))))...))))))).........))))..))))))..))... (-30.54 = -30.10 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:37:12 2006