Locus 6022

Sequence ID X_DroMel_CAF1
Location 15,463,465 – 15,463,603
Length 138
Max. P 0.846296
window9787 window9788

overview

Window 7

Location 15,463,465 – 15,463,564
Length 99
Sequences 5
Columns 118
Reading direction forward
Mean pairwise identity 69.97
Mean single sequence MFE -29.78
Consensus MFE -13.57
Energy contribution -13.73
Covariance contribution 0.16
Combinations/Pair 1.28
Mean z-score -1.86
Structure conservation index 0.46
SVM decision value 0.77
SVM RNA-class probability 0.846296
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15463465 99 + 22224390
GAGGCGAUGGAAAAUACACUUUGUAUGCCAGUGAAAAUGUUCGUUGGGCAUUUUCCUUUGGGUAAAAGUGUGUG------UUCUCAUUGUUUUCCGGCCAA----GUU---------G
((((((((((((.(((((((((.(((.((((.(((((((((.....)))))))))..)))))))))))))))).------))).)))))))))........----...---------. ( -33.10)
>DroSec_CAF1 23561 100 + 1
-----GAUGGCAAAUACACUUUGUAUGCCAGUGGAAAUGCUCGGUGGGCAUUUUCCUUUGGGGAAAAGUGUGUG------UUCUAUUUGUUUUCCGGCCAA----GUUUAAAUA---A
-----..((((..(((((((((...(.((((.(((((((((.....)))).))))).)))).).))))))))).------................)))).----.........---. ( -28.91)
>DroSim_CAF1 23782 94 + 1
-----GAUGGCAAAUACACUUUGUAUGCCAGUGGAAAUGCUCGGUGGGCAUUUUCCUUUGGGGAAAAGUGUGUG------UUCUUUUUGUUUUCCGGCCAA----GUU---------G
-----..((((..(((((((((...(.((((.(((((((((.....)))).))))).)))).).))))))))).------................)))).----...---------. ( -28.91)
>DroYak_CAF1 24743 99 + 1
CAGGCGGUGGAAAAUACGAUUUGUACGCCAUUGGAAAUGCUCGGUGGGCAUUUUCCUUUAAGGAAAAGUGUGUG------UUGUCUUUGCUUUCCGGCCAA----GUU---------G
..(((((((...((......))...))))..((((((.((.((..(.(((((((((.....)).))))))).).------.)).....)))))))))))..----...---------. ( -27.90)
>DroAna_CAF1 39175 114 + 1
GGAAAAGUGAAAAAUAUGAUUUGUGUGUCAGGAGAAAAGCUCC--GGGAAUUAUUUGU--ACAGAAAGUGUGCAAGGGAUUUUCAUUUGUUUUCCGUCCGUCCGUGAUUUAAUUCCGG
(((...(.(((((...((((......))))((((.....))))--(..((((.(((((--(((.....)))))))).))))..).....)))))).)))..(((.((......))))) ( -30.10)
>consensus
_____GAUGGAAAAUACACUUUGUAUGCCAGUGGAAAUGCUCGGUGGGCAUUUUCCUUUGGGGAAAAGUGUGUG______UUCUAUUUGUUUUCCGGCCAA____GUU_________G
.............(((((((((..........(((((((((.....))))))))).........)))))))))............................................. (-13.57 = -13.73 +   0.16)

alignment

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secondary structure

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dotplot

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Window 8

Location 15,463,505 – 15,463,603
Length 98
Sequences 4
Columns 98
Reading direction reverse
Mean pairwise identity 80.62
Mean single sequence MFE -21.20
Consensus MFE -12.41
Energy contribution -12.47
Covariance contribution 0.06
Combinations/Pair 1.23
Mean z-score -1.91
Structure conservation index 0.59
SVM decision value 0.09
SVM RNA-class probability 0.579532
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15463505 98 - 22224390
CUUCUGGCUCCCGCUUUUCUUUUUGGACCGUUCAAAGUACAACUUGGCCGGAAAACAAUGAGAACACACACUUUUACCCAAAGGAAAAUGCCCAACGA
....(((.....(((((((((((.((.(((..(((........)))..))).......(((((........))))))).))))))))).))))).... ( -18.40)
>DroSim_CAF1 23817 97 - 1
CUUCGGGCUCUCGCUUUUCUU-UUGGGCCGUUCAAAGUACAACUUGGCCGGAAAACAAAAAGAACACACACUUUUCCCCAAAGGAAAAUGCCCACCGA
....((((......(((((((-((((((((..(((........)))..)))......(((((........))))).)))))))))))).))))..... ( -28.30)
>DroEre_CAF1 26476 78 - 1
C-------UCCCGAUUUUCCU-UUGGACCGUUCAAAGUACAACUUGGCCGGAAAACAAAG----CACACACUUUUCCCCAAAGGAAAGUG--------
.-------.....((((((((-((((.(((..(((........)))..))).....((((----......))))...)))))))))))).-------- ( -22.40)
>DroYak_CAF1 24783 90 - 1
A-------UGCCGAUUUUCUU-UUGGACCGUUCAAAGUACAACUUGGCCGGAAAGCAAAGACAACACACACUUUUCCUUAAAGGAAAAUGCCCACCGA
.-------.(((((.((..((-(((((...)))))))...)).)))))(((...(((..(......)....((((((.....)))))))))...))). ( -15.70)
>consensus
C_______UCCCGAUUUUCUU_UUGGACCGUUCAAAGUACAACUUGGCCGGAAAACAAAGAGAACACACACUUUUCCCCAAAGGAAAAUGCCCACCGA
..............(((((((.((((.(((..(((........)))..)))......(((((........)))))..))))))))))).......... (-12.41 = -12.47 +   0.06)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:02:16 2006