Locus 5931

Sequence ID 2R_DroMel_CAF1
Location 18,708,074 – 18,708,176
Length 102
Max. P 0.699157
window9515 window9516

overview

Window 5

Location 18,708,074 – 18,708,176
Length 102
Sequences 4
Columns 102
Reading direction forward
Mean pairwise identity 82.33
Mean single sequence MFE -35.37
Consensus MFE -24.29
Energy contribution -26.23
Covariance contribution 1.94
Combinations/Pair 1.10
Mean z-score -1.76
Structure conservation index 0.69
SVM decision value 0.35
SVM RNA-class probability 0.699157
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18708074 102 + 20766785
UCGCUUUGGAGCUCCGCAACUCCGCAGCUCCGGACCUUUGGAGUAGCAAUUAAAUGCCCGGCGGAUGAAUAUGUGCGCUGCUGCUCACCGAGUUUUCCACAG
.......((((((.((......)).))))))(((.(((.(((((((((............(((.((......)).))))))))))).).)))...))).... ( -31.20)
>DroSec_CAF1 71547 98 + 1
UCGCUUUGGAGCAACGGAGCUCCGCAGCUUCGGAGCUUUGAAGCAGCAAUUAAAUGCCCGGCGGGCGAAUG----UGCUGCUGCUCACCGAGUUUUCCACAG
..((((.(((((..((((((((((......)))))))))).(((((((......(((((...)))))....----))))))))))).).))))......... ( -42.40)
>DroSim_CAF1 71963 98 + 1
UCGCUUUGGAGCAACGGAGCUCCGCAGCUCCGGAGCUUUGGAGCAGCAAUUAAAUGCCCGGCGGGCGAAUG----UGCUGCUGCUCACCGAGUUUUCCACAG
..((((((((((..(((....)))..))))))))))..((((((((((......(((((...)))))....----)))))).((((...))))..))))... ( -43.90)
>DroEre_CAF1 72478 79 + 1
UCGCUUUG----------------CAGCUUCGGAGCUUUGGAGCAGCAAUUAAAUGCCCGGCGGACAAAUG----UG---CUGCUCACCGAGUUUUCCACAG
..(((...----------------.)))...(((((((.(((((((((........((....)).......----))---)))))).).))))..))).... ( -23.96)
>consensus
UCGCUUUGGAGCAACGGAGCUCCGCAGCUCCGGAGCUUUGGAGCAGCAAUUAAAUGCCCGGCGGACGAAUG____UGCUGCUGCUCACCGAGUUUUCCACAG
..(((.((((((......)))))).)))...(((((((..((((((((......(((((...)))))...........))))))))...))))..))).... (-24.29 = -26.23 +   1.94)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 18,708,074 – 18,708,176
Length 102
Sequences 4
Columns 102
Reading direction reverse
Mean pairwise identity 82.33
Mean single sequence MFE -33.40
Consensus MFE -24.42
Energy contribution -25.61
Covariance contribution 1.19
Combinations/Pair 1.11
Mean z-score -1.46
Structure conservation index 0.73
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18708074 102 - 20766785
CUGUGGAAAACUCGGUGAGCAGCAGCGCACAUAUUCAUCCGCCGGGCAUUUAAUUGCUACUCCAAAGGUCCGGAGCUGCGGAGUUGCGGAGCUCCAAAGCGA
..(((((.......(((.((....)).))).......)))))((((((......)))).............((((((.((......)).))))))....)). ( -30.94)
>DroSec_CAF1 71547 98 - 1
CUGUGGAAAACUCGGUGAGCAGCAGCA----CAUUCGCCCGCCGGGCAUUUAAUUGCUGCUUCAAAGCUCCGAAGCUGCGGAGCUCCGUUGCUCCAAAGCGA
((.((((.....(((((((((((((..----.....((((...))))......))))))).))).(((((((......))))))))))....)))).))... ( -36.32)
>DroSim_CAF1 71963 98 - 1
CUGUGGAAAACUCGGUGAGCAGCAGCA----CAUUCGCCCGCCGGGCAUUUAAUUGCUGCUCCAAAGCUCCGGAGCUGCGGAGCUCCGUUGCUCCAAAGCGA
(((.(.....).))).(((((((((..----.....((((...))))......)))))))))....(((..(((((.((((....)))).)))))..))).. ( -40.82)
>DroEre_CAF1 72478 79 - 1
CUGUGGAAAACUCGGUGAGCAG---CA----CAUUUGUCCGCCGGGCAUUUAAUUGCUGCUCCAAAGCUCCGAAGCUG----------------CAAAGCGA
...((((...((..(.((((((---((----....(((((...)))))......)))))))))..)).))))..(((.----------------...))).. ( -25.50)
>consensus
CUGUGGAAAACUCGGUGAGCAGCAGCA____CAUUCGCCCGCCGGGCAUUUAAUUGCUGCUCCAAAGCUCCGAAGCUGCGGAGCUCCGUUGCUCCAAAGCGA
...((((...((..(.(((((((((...........((((...))))......))))))))))..)).))))..(((..(((((......)))))..))).. (-24.42 = -25.61 +   1.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:58:22 2006