Locus 7871

Sequence ID 3L_DroMel_CAF1
Location 21,020,162 – 21,020,266
Length 104
Max. P 0.970444
window12811 window12812

overview

Window 1

Location 21,020,162 – 21,020,266
Length 104
Sequences 4
Columns 112
Reading direction forward
Mean pairwise identity 92.72
Mean single sequence MFE -19.76
Consensus MFE -18.10
Energy contribution -18.41
Covariance contribution 0.31
Combinations/Pair 1.05
Mean z-score -2.17
Structure conservation index 0.92
SVM decision value 1.66
SVM RNA-class probability 0.970444
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21020162 104 + 23771897
UCGCCAUCAUAGUUACCGACAGCUCUCGCUCUAGCUGUCCCUCU--CUUCGCUGAUAUCUCCCAUUUAU------AUAUAUUUUCUCGGCAUCUGGGAAACUGCAUAAUUUU
.........(((((.(((((((((........))))))).....--....(((((..............------..........))))).....)).)))))......... ( -19.76)
>DroSim_CAF1 46222 110 + 1
UCGCCAUCAUAGUUACCGACAGCUCUCGCUCUAGCUGUCCCUCU--CUUCGCCGAUAUCUCCCAUUUAUAUGUAUAUAUAUUUUCUCGGCAUCUGGGAAACUGCAUAAUUUU
.........(((((.(((((((((........))))))).....--....(((((...........(((((....))))).....))))).....)).)))))......... ( -21.79)
>DroEre_CAF1 46991 102 + 1
UCGCCAUCAUAGUUACCGACAGCUCUCGCUCUAGCUGUCUCUCU--CUUUCCCGAUAUCUCCCAUUUAU--------AUAUUUUCUCGGCAUCUGGGAAACUGCAUAAUUUU
..((.............(((((((........))))))).....--.(((((((((..(..........--------..........)..))).))))))..))........ ( -19.55)
>DroYak_CAF1 47199 104 + 1
UCGCCAUCAUAGUUACCGACAGCUCUCGCUCUAGCUGUCUCUCUCUCUUCACCGAUAUCUCCCAUUUAU--------AUAUUUUCUCGGCAUCUGGGAAACUGCAUAAUUUU
.........(((((.(((((((((........)))))))............((((..............--------........))))......)).)))))......... ( -17.95)
>consensus
UCGCCAUCAUAGUUACCGACAGCUCUCGCUCUAGCUGUCCCUCU__CUUCGCCGAUAUCUCCCAUUUAU________AUAUUUUCUCGGCAUCUGGGAAACUGCAUAAUUUU
.........(((((.(((((((((........)))))))...........(((((..............................))))).....)).)))))......... (-18.10 = -18.41 +   0.31)

alignment

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secondary structure

Postscript

dotplot

Postscript

Window 2

Location 21,020,162 – 21,020,266
Length 104
Sequences 4
Columns 112
Reading direction reverse
Mean pairwise identity 92.72
Mean single sequence MFE -23.18
Consensus MFE -21.95
Energy contribution -21.95
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.28
Structure conservation index 0.95
SVM decision value 0.02
SVM RNA-class probability 0.541324
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21020162 104 - 23771897
AAAAUUAUGCAGUUUCCCAGAUGCCGAGAAAAUAUAU------AUAAAUGGGAGAUAUCAGCGAAG--AGAGGGACAGCUAGAGCGAGAGCUGUCGGUAACUAUGAUGGCGA
.......(((.((((((((..................------.....))))))))((((....((--..(..(((((((........)))))))..)..)).)))).))). ( -22.70)
>DroSim_CAF1 46222 110 - 1
AAAAUUAUGCAGUUUCCCAGAUGCCGAGAAAAUAUAUAUACAUAUAAAUGGGAGAUAUCGGCGAAG--AGAGGGACAGCUAGAGCGAGAGCUGUCGGUAACUAUGAUGGCGA
...(((((..((((.((....((((((.....(((.(((....))).))).......))))))...--.....(((((((........))))))))).)))))))))..... ( -24.40)
>DroEre_CAF1 46991 102 - 1
AAAAUUAUGCAGUUUCCCAGAUGCCGAGAAAAUAU--------AUAAAUGGGAGAUAUCGGGAAAG--AGAGAGACAGCUAGAGCGAGAGCUGUCGGUAACUAUGAUGGCGA
.......(((..((((((.((((((.(........--------.....).))...)))))))))).--.....(((((((........))))))).............))). ( -23.02)
>DroYak_CAF1 47199 104 - 1
AAAAUUAUGCAGUUUCCCAGAUGCCGAGAAAAUAU--------AUAAAUGGGAGAUAUCGGUGAAGAGAGAGAGACAGCUAGAGCGAGAGCUGUCGGUAACUAUGAUGGCGA
.......(((.((((((((................--------.....))))))))((((......((..(..(((((((........)))))))..)..)).)))).))). ( -22.60)
>consensus
AAAAUUAUGCAGUUUCCCAGAUGCCGAGAAAAUAU________AUAAAUGGGAGAUAUCGGCGAAG__AGAGAGACAGCUAGAGCGAGAGCUGUCGGUAACUAUGAUGGCGA
.......(((.((((((((.............................)))))))).................(((((((........))))))).............))). (-21.95 = -21.95 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:59:08 2006