Locus 6311

Sequence ID 3R_DroMel_CAF1
Location 16,493,478 – 16,493,573
Length 95
Max. P 0.962138
window10296 window10297

overview

Window 6

Location 16,493,478 – 16,493,573
Length 95
Sequences 5
Columns 110
Reading direction forward
Mean pairwise identity 83.32
Mean single sequence MFE -33.80
Consensus MFE -25.66
Energy contribution -25.46
Covariance contribution -0.20
Combinations/Pair 1.08
Mean z-score -1.94
Structure conservation index 0.76
SVM decision value 0.76
SVM RNA-class probability 0.843464
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16493478 95 + 27905053
GGAGCUGAAGCUGAAGGUGGCUGAAGGUGGGCACCUCGACAAAUCCACAAAUGUGUGGAUUGCACUUGAGCCAGU---CGAGGCAUU------------CAUUCAGGCAG
..(((....))).....((.((((..(((((..(((((((.((((((((....))))))))((......))..))---)))))..))------------))))))).)). ( -35.30)
>DroSec_CAF1 50213 97 + 1
GGAGCUGAAGCUGAAGGUGGCUGAAGGUGGGCACCUCGACA-AUCCACAAAUGUGUGGAUUGCACUUGAGCCAGUCGUCGGGGCAUU------------CAUUCAGGCAG
..(((....))).....((.((((..(((((..((((((((-(((((((....))))))))((......)).....)))))))..))------------))))))).)). ( -34.50)
>DroSim_CAF1 53774 97 + 1
GGUGCUGAAGCUGAAGGUGGCUGAAGGUGGGCACCUCGACA-AUCCACAAAUGUGUGGAUUGCACUUGAGCCAGUCGUCGGGGCAUU------------CAUUCAGGCAG
..(((((((..((((..(((((.(((..(((...)))(.((-(((((((....)))))))))).))).)))))(((.....))).))------------)))))).))). ( -33.30)
>DroEre_CAF1 51068 98 + 1
GG-------GUUGGAACUGGCUGAAGGUGGGCACCUCGACA-AUCCACAAAUGUGUGGAUUGCACUUGAGCCAGUC----AGGCAUUUAUGCAUUUAGGCAUUCAGGCAG
..-------....((.((((((.(((..(((...)))(.((-(((((((....)))))))))).))).))))))))----..((....((((......))))....)).. ( -34.70)
>DroYak_CAF1 52576 82 + 1
GG-------GUUGAAACUGGCUGAAGGUGGGCACCUCGACA-AUCCACAAAUGUGUGGAUUGCACUUGAGCCAGUC----AGGC----------------AUUCAGGCAG
.(-------.((((((((((((.(((..(((...)))(.((-(((((((....)))))))))).))).))))))).----....----------------.))))).).. ( -31.20)
>consensus
GG_GCUGAAGCUGAAGGUGGCUGAAGGUGGGCACCUCGACA_AUCCACAAAUGUGUGGAUUGCACUUGAGCCAGUC__CGAGGCAUU____________CAUUCAGGCAG
..........(((((..(((((.(((....(((.........(((((((....)))))))))).))).)))))(((.....))).................))))).... (-25.66 = -25.46 +  -0.20)

alignment

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secondary structure

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dotplot

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Window 7

Location 16,493,478 – 16,493,573
Length 95
Sequences 5
Columns 110
Reading direction reverse
Mean pairwise identity 83.32
Mean single sequence MFE -29.98
Consensus MFE -20.12
Energy contribution -20.12
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -2.68
Structure conservation index 0.67
SVM decision value 1.54
SVM RNA-class probability 0.962138
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16493478 95 - 27905053
CUGCCUGAAUG------------AAUGCCUCG---ACUGGCUCAAGUGCAAUCCACACAUUUGUGGAUUUGUCGAGGUGCCCACCUUCAGCCACCUUCAGCUUCAGCUCC
.((.(((((((------------..(((((((---((..((......))((((((((....)))))))).)))))))))..))..))))).)).....(((....))).. ( -31.40)
>DroSec_CAF1 50213 97 - 1
CUGCCUGAAUG------------AAUGCCCCGACGACUGGCUCAAGUGCAAUCCACACAUUUGUGGAU-UGUCGAGGUGCCCACCUUCAGCCACCUUCAGCUUCAGCUCC
.((.(((((.(------------...((((((((.....((......))((((((((....)))))))-))))).)).))...).))))).)).....(((....))).. ( -28.40)
>DroSim_CAF1 53774 97 - 1
CUGCCUGAAUG------------AAUGCCCCGACGACUGGCUCAAGUGCAAUCCACACAUUUGUGGAU-UGUCGAGGUGCCCACCUUCAGCCACCUUCAGCUUCAGCACC
.((.(((((.(------------...((((((((.....((......))((((((((....)))))))-))))).)).))...).))))).))......((....))... ( -28.30)
>DroEre_CAF1 51068 98 - 1
CUGCCUGAAUGCCUAAAUGCAUAAAUGCCU----GACUGGCUCAAGUGCAAUCCACACAUUUGUGGAU-UGUCGAGGUGCCCACCUUCAGCCAGUUCCAAC-------CC
..((.(..((((......))))..).))..----((((((((.....((((((((((....)))))))-))).(((((....))))).)))))))).....-------.. ( -32.50)
>DroYak_CAF1 52576 82 - 1
CUGCCUGAAU----------------GCCU----GACUGGCUCAAGUGCAAUCCACACAUUUGUGGAU-UGUCGAGGUGCCCACCUUCAGCCAGUUUCAAC-------CC
.........(----------------(...----((((((((.....((((((((((....)))))))-))).(((((....))))).)))))))).))..-------.. ( -29.30)
>consensus
CUGCCUGAAUG____________AAUGCCUCG__GACUGGCUCAAGUGCAAUCCACACAUUUGUGGAU_UGUCGAGGUGCCCACCUUCAGCCACCUUCAGCUUCAGC_CC
.....................................(((((.....((((((((((....))))))).))).(((((....))))).)))))................. (-20.12 = -20.12 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:18:25 2006