Locus 8112

Sequence ID X_DroMel_CAF1
Location 20,180,316 – 20,180,469
Length 153
Max. P 0.750574
window13312 window13313

overview

Window 2

Location 20,180,316 – 20,180,430
Length 114
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 89.94
Mean single sequence MFE -23.58
Consensus MFE -16.59
Energy contribution -17.63
Covariance contribution 1.04
Combinations/Pair 1.05
Mean z-score -1.95
Structure conservation index 0.70
SVM decision value 0.05
SVM RNA-class probability 0.558220
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20180316 114 - 22224390
AUUGCCACCUGGGCGUCUCACACCUUACU------GAACGCCCAGUCCAAUCCGCACCAGCUGUCACCCGCAAAAUCUCCGCGAAAUCCCAGCUGAAAACUUCCCUACAAUGCGAUUUGU
(((((...((((((((.(((........)------))))))))))............((((((.....(((.........)))......))))))................))))).... ( -29.90)
>DroSec_CAF1 1984 114 - 1
AUUGCCACCUGGGCAUUUCACACCUUUCU------GAACGCCCAGUCCAAUCCCCGCCAGCUGUCACCCGCAAAAUCUCCGCGAAAUCCCAGCUGAAAACUUCCCUACAAUGCGAUUUGU
(((((...((((((..((((........)------))).))))))............((((((.....(((.........)))......))))))................))))).... ( -26.10)
>DroSim_CAF1 1402 114 - 1
AUUGCCACCUGGGCAUCUCACACCUUUCU------GAACGCCCAGUCCAAUCCCCGCCAGCUGUCACCCGCAAAAUCUCCGCGAAAUCCCAGCUGAAAACUUCCCUACAAUGCGAUUUGU
(((((...((((((...(((........)------))..))))))............((((((.....(((.........)))......))))))................))))).... ( -25.20)
>DroEre_CAF1 396 113 - 1
AUUGCCACCUG-CCAUCUCACACCUUUCG------AAGCGCGUAGUUCAAUCCCCACCAGCUGUCACCCGCAAAAUCUCCGCAAAAUCCCAGCUGAAAACUUCCCUACAAUGCGAUUUGU
...........-...............((------((.(((((.((...........((((((......((.........)).......))))))...........)).))))).)))). ( -16.57)
>DroYak_CAF1 1988 119 - 1
AUUGCCACCUG-CCAGCUCACACUUUUCGGCAGCCACACGCCCAGUCCAAUCCUCACCAGCUGUCACCCGCGAAAUCUCCGCGAAAUCCCAGCUAAAAACUUCCCUACCAUGCGAUUUGU
(((((...(((-((..............))))).........................(((((.....((((.......))))......))))).................))))).... ( -20.14)
>consensus
AUUGCCACCUGGGCAUCUCACACCUUUCU______GAACGCCCAGUCCAAUCCCCACCAGCUGUCACCCGCAAAAUCUCCGCGAAAUCCCAGCUGAAAACUUCCCUACAAUGCGAUUUGU
(((((...((((((.........................))))))............((((((.....(((.........)))......))))))................))))).... (-16.59 = -17.63 +   1.04)

alignment

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secondary structure

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dotplot

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Window 3

Location 20,180,356 – 20,180,469
Length 113
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 84.79
Mean single sequence MFE -44.38
Consensus MFE -29.91
Energy contribution -31.51
Covariance contribution 1.60
Combinations/Pair 1.15
Mean z-score -2.07
Structure conservation index 0.67
SVM decision value 0.47
SVM RNA-class probability 0.750574
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20180356 113 + 22224390
GGAGAUUUUGCGGGUGACAGCUGGUGCGGAUUGGACUGGGCGUUC------AGUAAGGUGUGAGACGCCCAGGUGGCAAUGUGCAGCAGACUUCUGUAC-UGUUCCAGCUCCAUCUCCAU
((((((...((.((.((((((((.((((.((((..((((((((((------(........))).))))))))....)))).)))).)))((....)).)-)))))).))...)))))).. ( -49.20)
>DroSec_CAF1 2024 113 + 1
GGAGAUUUUGCGGGUGACAGCUGGCGGGGAUUGGACUGGGCGUUC------AGAAAGGUGUGAAAUGCCCAGGUGGCAAUGUGCAGCAGACUUCUGUAU-UGUUCCAGCUCCAUCUCCAU
((((((...((.(((....))).))((((.(((((((((((((((------(.(....).)).)))))))))...(((((.....((((....))))))-)))))))))))))))))).. ( -46.10)
>DroSim_CAF1 1442 113 + 1
GGAGAUUUUGCGGGUGACAGCUGGCGGGGAUUGGACUGGGCGUUC------AGAAAGGUGUGAGAUGCCCAGGUGGCAAUGUGCAGCAGACUUCUGUAU-UGUUCCAGCUCCAUCUCCAU
((((((...((.(((....))).))((((.(((((((((((((((------(.(....).))).))))))))...(((((.....((((....))))))-)))))))))))))))))).. ( -46.10)
>DroEre_CAF1 436 113 + 1
GGAGAUUUUGCGGGUGACAGCUGGUGGGGAUUGAACUACGCGCUU------CGAAAGGUGUGAGAUGG-CAGGUGGCAAUGUGCAGCAGACUACUGUUCCAGCUCCAGCUCCUUCUCCAU
(((((.......(....)((((((.(.(((.....((.((((((.------.....))))))))...(-((.((....)).))).((((....)))))))..).))))))...))))).. ( -36.80)
>DroYak_CAF1 2028 108 + 1
GGAGAUUUCGCGGGUGACAGCUGGUGAGGAUUGGACUGGGCGUGUGGCUGCCGAAAAGUGUGAGCUGG-CAGGUGGCAAUGUGCAGCAGA-----------GCUCCAUCUCCAUCUCCAU
((((((.((((.(((....))).))))(((.(((((((.(((..(.((..((....(((....)))..-..))..)).)..)))..))).-----------..))))..))))))))).. ( -43.70)
>consensus
GGAGAUUUUGCGGGUGACAGCUGGUGGGGAUUGGACUGGGCGUUC______AGAAAGGUGUGAGAUGCCCAGGUGGCAAUGUGCAGCAGACUUCUGUAC_UGUUCCAGCUCCAUCUCCAU
((((((.((((.(((....))).))))(((((((((((((((((...................)))))))))((.((.....)).))................))))).))))))))).. (-29.91 = -31.51 +   1.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:55:42 2006