Locus 8651

Sequence ID X_DroMel_CAF1
Location 21,853,562 – 21,853,693
Length 131
Max. P 0.871070
window14214 window14215

overview

Window 4

Location 21,853,562 – 21,853,665
Length 103
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 73.68
Mean single sequence MFE -21.84
Consensus MFE -6.32
Energy contribution -7.48
Covariance contribution 1.16
Combinations/Pair 1.27
Mean z-score -1.72
Structure conservation index 0.29
SVM decision value 0.21
SVM RNA-class probability 0.634669
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21853562 103 - 22224390
AGUG--CUCGCCUACUUUCGAGUA--UUCAUCAUUCA---------AGUGAUGCACUUGCAUUAUUCAUGCACACUCCAUCAGCUGCGA----CAUUUGAUUGCCGCUCUUGGCCCAUUA
((((--((((........))))))--))((((((...---------.))))))....(((((.....)))))....(((..(((.((((----(....).)))).)))..)))....... ( -24.90)
>DroSec_CAF1 40541 103 - 1
AGUG--CUCGCCUACUUUUGAGUA--UUCAUCAUUCA---------AGUGAUGCACUUGCAUUAUUCAUGCACACUCCAUCAGCUGCGA----CAUUUGAUUGCCGCUCUUGGCCCAUUA
.(((--(..........((((((.--......)))))---------)(((((((....)))))))....))))...(((..(((.((((----(....).)))).)))..)))....... ( -24.90)
>DroEre_CAF1 16194 112 - 1
AGUG--CUCGCCUACUUUUGAGUA--UUCAUCAUUGAUCAUUCAUCAGUGAUGCAUUCGCAUUAUUCAUUCACACGCCAUCAGCUGCGA----CAUUUGAUUGCCGCUCUUGGCCCUUUU
((((--((((........))))))--))((((((((((.....))))))))))......................((((..(((.((((----(....).)))).)))..))))...... ( -29.90)
>DroYak_CAF1 17589 103 - 1
AGUG--CUCGCCUAGUUUUGAGUA--UUCAUCAUUCA---------GGUGAUGCAUUCGCAUUAUUCAUUCACACACCAUCAGCUGCGA----CAUUUGAUAGCCUUUCUUGGCCCAUUA
.(((--((((((((((..((....--..))..))).)---------))))).))))(((((.......................)))))----.........(((......)))...... ( -21.10)
>DroAna_CAF1 10777 102 - 1
ACUAAACUCAUAUCAUUCUGAGUAGAGCUAUCAAUCA---------AAAGCAACUCACACAUAAUUCAUUCACACGCCAUCGACUCUAAACGCUUUCUGA--------CUCGUCUCAUU-
.....(((((........))))).(((.......(((---------(((((........................................))))).)))--------.....)))...- (  -8.40)
>consensus
AGUG__CUCGCCUACUUUUGAGUA__UUCAUCAUUCA_________AGUGAUGCACUCGCAUUAUUCAUUCACACGCCAUCAGCUGCGA____CAUUUGAUUGCCGCUCUUGGCCCAUUA
......((((........))))........................((((((((....))))))))....................................(((......)))...... ( -6.32 =  -7.48 +   1.16)

alignment

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secondary structure

Postscript

dotplot

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Window 5

Location 21,853,598 – 21,853,693
Length 95
Sequences 5
Columns 113
Reading direction reverse
Mean pairwise identity 72.26
Mean single sequence MFE -18.52
Consensus MFE -5.50
Energy contribution -6.50
Covariance contribution 1.00
Combinations/Pair 1.31
Mean z-score -1.93
Structure conservation index 0.30
SVM decision value 0.87
SVM RNA-class probability 0.871070
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21853598 95 - 22224390
AAAUGU-----CUGCAUCCAUCGAGAUCCCUUCAGUG--CUCGCCUACUUUCGAGUA--UUCAUCAUUCA---------AGUGAUGCACUUGCAUUAUUCAUGCACACUCCAU
....((-----.(((((.......((.......((((--((((........))))))--))......)).---------((((((((....)))))))).))))).))..... ( -20.32)
>DroSec_CAF1 40577 95 - 1
AAAUGA-----CUGCAUCCAUCGAGAACCCUUCAGUG--CUCGCCUACUUUUGAGUA--UUCAUCAUUCA---------AGUGAUGCACUUGCAUUAUUCAUGCACACUCCAU
......-----.(((((((..((((.((......)).--)))).......((((((.--......)))))---------)).))))))..(((((.....)))))........ ( -17.80)
>DroEre_CAF1 16230 104 - 1
AAAUGG-----CUGCAUCCAGCGCUCUCCCUUCAGUG--CUCGCCUACUUUUGAGUA--UUCAUCAUUGAUCAUUCAUCAGUGAUGCAUUCGCAUUAUUCAUUCACACGCCAU
..((((-----(.((.....))((.........((((--((((........))))))--))((((((((((.....)))))))))).....))...............))))) ( -26.10)
>DroYak_CAF1 17625 98 - 1
AAAUGC--AUUCUGCAUCCAUCACGCUCCCUUCAGUG--CUCGCCUAGUUUUGAGUA--UUCAUCAUUCA---------GGUGAUGCAUUCGCAUUAUUCAUUCACACACCAU
.(((((--.....((.........)).......((((--((((((((((..((....--..))..))).)---------))))).))))).)))))................. ( -19.10)
>DroAna_CAF1 10808 102 - 1
AGAUUCCGAUUCCGAUUCCG--AGACUCCAAUCACUAAACUCAUAUCAUUCUGAGUAGAGCUAUCAAUCA---------AAAGCAACUCACACAUAAUUCAUUCACACGCCAU
.((((..((.((((....))--.)).)).)))).....(((((........)))))...(((........---------..)))............................. (  -9.30)
>consensus
AAAUGC_____CUGCAUCCAUCGAGCUCCCUUCAGUG__CUCGCCUACUUUUGAGUA__UUCAUCAUUCA_________AGUGAUGCACUCGCAUUAUUCAUUCACACGCCAU
.............((((......................((((........))))........................((((((((....)))))))).))))......... ( -5.50 =  -6.50 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:09:22 2006