Locus 331

Sequence ID 2L_DroMel_CAF1
Location 994,457 – 994,595
Length 138
Max. P 0.795717
window523 window524

overview

Window 3

Location 994,457 – 994,556
Length 99
Sequences 3
Columns 99
Reading direction reverse
Mean pairwise identity 90.41
Mean single sequence MFE -28.87
Consensus MFE -21.65
Energy contribution -21.10
Covariance contribution -0.55
Combinations/Pair 1.16
Mean z-score -2.51
Structure conservation index 0.75
SVM decision value 0.26
SVM RNA-class probability 0.656891
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 994457 99 - 22407834
AGUAUCAAAUUCAUGGAUGGUAAAGGACUGCUAUGCAUGUACAUAUGUACAUAUAUGCGUGGAAGUCUCUGAAAUCGAUCCAUGUGCAUGGAUGUGGGG
..((((.....(((((((.(...((((((.((((((((((((....)))))....))))))).)))).)).....).)))))))......))))..... ( -32.40)
>DroSec_CAF1 115459 94 - 1
AGUAUCAAAUUCAUGCAUGGCAAAGAACUGCU-CGUAUGUACAU----ACAUACAUGCGUGAAAGUCUGUGAAAUCGAUCCAGGUGCAUGGAUGUGGGG
....(((.((((((((((((((......))))-((((((((...----...)))))))).......(((.((......))))))))))))))).))).. ( -27.10)
>DroSim_CAF1 116071 94 - 1
AGUAUCAAAUUCAUGCAUGGCAAAGAACUGCU-CGUAUGUACAU----ACAUACAUGCGUGAAAGUCUGUGAAAUCGAUCCAGGUGCAUGGAUGUGGGG
....(((.((((((((((((((......))))-((((((((...----...)))))))).......(((.((......))))))))))))))).))).. ( -27.10)
>consensus
AGUAUCAAAUUCAUGCAUGGCAAAGAACUGCU_CGUAUGUACAU____ACAUACAUGCGUGAAAGUCUGUGAAAUCGAUCCAGGUGCAUGGAUGUGGGG
....(((.((((((((((((((......)))).((((((((..........))))))))........................)))))))))).))).. (-21.65 = -21.10 +  -0.55)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 4

Location 994,483 – 994,595
Length 112
Sequences 3
Columns 112
Reading direction reverse
Mean pairwise identity 89.39
Mean single sequence MFE -29.53
Consensus MFE -22.35
Energy contribution -22.13
Covariance contribution -0.21
Combinations/Pair 1.13
Mean z-score -2.74
Structure conservation index 0.76
SVM decision value 0.60
SVM RNA-class probability 0.795717
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 994483 112 - 22407834
UAUCAUUAUAUCUAUGUAGAACUCGAACAGGUUCGCAGAAGUAUCAAAUUCAUGGAUGGUAAAGGACUGCUAUGCAUGUACAUAUGUACAUAUAUGCGUGGAAGUCUCUGAA
..(((...((((((((..(((((......)))))...((....)).....)))))))).....(((((.((((((((((((....)))))....))))))).))))).))). ( -29.90)
>DroSec_CAF1 115485 106 - 1
UAGCAU-AUACAUAUGUAGAACUCGAACAGGUUCGCAGAAGUAUCAAAUUCAUGCAUGGCAAAGAACUGCU-CGUAUGUACAU----ACAUACAUGCGUGAAAGUCUGUGAA
..((((-(....))))).(((((......)))))(((((.........(((((((((((((......))))-.((((((....----)))))))))))))))..)))))... ( -29.20)
>DroSim_CAF1 116097 106 - 1
UAGCAU-AUACGUAUGUAGAACUCGAACAGGUUCGCAGAAGUAUCAAAUUCAUGCAUGGCAAAGAACUGCU-CGUAUGUACAU----ACAUACAUGCGUGAAAGUCUGUGAA
..((((-(....))))).(((((......)))))(((((.........(((((((((((((......))))-.((((((....----)))))))))))))))..)))))... ( -29.50)
>consensus
UAGCAU_AUACAUAUGUAGAACUCGAACAGGUUCGCAGAAGUAUCAAAUUCAUGCAUGGCAAAGAACUGCU_CGUAUGUACAU____ACAUACAUGCGUGAAAGUCUGUGAA
.......((((...(((.(((((......))))))))...))))....(((((((((((((......))))..((((((........))))))))))))))).......... (-22.35 = -22.13 +  -0.21)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:33:10 2006