Locus 2636

Sequence ID 3L_DroMel_CAF1
Location 7,253,394 – 7,253,499
Length 105
Max. P 0.998631
window4136 window4137

overview

Window 6

Location 7,253,394 – 7,253,499
Length 105
Sequences 4
Columns 105
Reading direction forward
Mean pairwise identity 83.47
Mean single sequence MFE -25.63
Consensus MFE -22.00
Energy contribution -22.12
Covariance contribution 0.12
Combinations/Pair 1.04
Mean z-score -2.35
Structure conservation index 0.86
SVM decision value 1.85
SVM RNA-class probability 0.979811
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7253394 105 + 23771897
ACUCACUAUCUAUCUAUCUCUCUCUAUGCUGAUUCGAUAUCAAAGGGGAUAUUCAAAUCAACUGCUGCCGCUGUCAGUUGGAUGUCCAACUUUAAUUGGCACUGU
..........................(((..(((.......((((.((((((((((....((.((....)).))...))))))))))..)))))))..))).... ( -20.91)
>DroSim_CAF1 10210 101 + 1
ACUCACUAUCUAUCUCUCUCUCUC--AGUCGAUUGGAUAUCAAAG--GAUAUUCAAAUCGACUGCUGCCGCUGUCAGUUGGGUGUCCAACUUUAAUUGGCACUGU
.......................(--(((((((((((((((....--))))))).))))))))).(((((.....((((((....)))))).....))))).... ( -31.50)
>DroEre_CAF1 10108 85 + 1
ACUCUG----------------UC--UGUCGAUUCGAUAUCAAAG--GAUAUUCAAAUCGACUGCUGCCGCUGUCAGUUGGGUGUCCAACUUUAAUUGGCACUGU
.....(----------------(.--.(((((((.((((((....--))))))..))))))).))(((((.....((((((....)))))).....))))).... ( -24.90)
>DroYak_CAF1 10266 88 + 1
ACUCUCUAU-------------UC--UGCCGAUUCGAUAUCAAAG--GAUAUUCAAAUCGACUGCUGCCGCUGUCAGUUGGGUGUCCAACUUUAAUUGGCACUGU
.........-------------..--((((((((.(....)...(--(((((((((...(((.((....)).)))..))))))))))......)))))))).... ( -25.20)
>consensus
ACUCACUAU_____________UC__UGCCGAUUCGAUAUCAAAG__GAUAUUCAAAUCGACUGCUGCCGCUGUCAGUUGGGUGUCCAACUUUAAUUGGCACUGU
...........................(((((((.((((((......)))).)).)))))))...(((((.....((((((....)))))).....))))).... (-22.00 = -22.12 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 7,253,394 – 7,253,499
Length 105
Sequences 4
Columns 105
Reading direction reverse
Mean pairwise identity 83.47
Mean single sequence MFE -28.75
Consensus MFE -27.92
Energy contribution -27.55
Covariance contribution -0.37
Combinations/Pair 1.08
Mean z-score -2.95
Structure conservation index 0.97
SVM decision value 3.17
SVM RNA-class probability 0.998631
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7253394 105 - 23771897
ACAGUGCCAAUUAAAGUUGGACAUCCAACUGACAGCGGCAGCAGUUGAUUUGAAUAUCCCCUUUGAUAUCGAAUCAGCAUAGAGAGAGAUAGAUAGAUAGUGAGU
....((((......((((((....))))))......))))...((((((((((.((((......))))))))))))))........................... ( -28.20)
>DroSim_CAF1 10210 101 - 1
ACAGUGCCAAUUAAAGUUGGACACCCAACUGACAGCGGCAGCAGUCGAUUUGAAUAUC--CUUUGAUAUCCAAUCGACU--GAGAGAGAGAGAUAGAUAGUGAGU
....((((......((((((....))))))......)))).(((((((((.((.((((--....)))))).))))))))--)....................... ( -29.00)
>DroEre_CAF1 10108 85 - 1
ACAGUGCCAAUUAAAGUUGGACACCCAACUGACAGCGGCAGCAGUCGAUUUGAAUAUC--CUUUGAUAUCGAAUCGACA--GA----------------CAGAGU
....((((......((((((....))))))......))))...((((((((((.((((--....)))))))))))))).--..----------------...... ( -29.20)
>DroYak_CAF1 10266 88 - 1
ACAGUGCCAAUUAAAGUUGGACACCCAACUGACAGCGGCAGCAGUCGAUUUGAAUAUC--CUUUGAUAUCGAAUCGGCA--GA-------------AUAGAGAGU
....((((......((((((....))))))......))))...((((((((((.((((--....)))))))))))))).--..-------------......... ( -28.60)
>consensus
ACAGUGCCAAUUAAAGUUGGACACCCAACUGACAGCGGCAGCAGUCGAUUUGAAUAUC__CUUUGAUAUCGAAUCGACA__GA_____________AUAGAGAGU
....((((......((((((....))))))......))))...((((((((((.((((......))))))))))))))........................... (-27.92 = -27.55 +  -0.37)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:38:12 2006