Locus 3313

Sequence ID X_DroMel_CAF1
Location 8,859,038 – 8,859,130
Length 92
Max. P 0.524936
window5418 window5419

overview

Window 8

Location 8,859,038 – 8,859,130
Length 92
Sequences 3
Columns 92
Reading direction forward
Mean pairwise identity 85.51
Mean single sequence MFE -26.90
Consensus MFE -21.17
Energy contribution -21.07
Covariance contribution -0.11
Combinations/Pair 1.11
Mean z-score -1.67
Structure conservation index 0.79
SVM decision value -0.05
SVM RNA-class probability 0.510010
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8859038 92 + 22224390
GCGACAGCAACGCGACAACUUGCAGCAGCAACAUCUAUUGCAACUGCAACAUCGACGGCUUAAGCGAAGAGAACUGUGCGAAUGGCAGUGCA
......(((.(((((....((((((..((((......))))..))))))..))).))(((...(((.((....)).)))....)))..))). ( -24.40)
>DroSec_CAF1 99004 92 + 1
GCGACAGCAACGCGACAACUUGCAGCAGCAGCAUCUGUUGCAACUGCAAUAUCGACGGCUUCAGUGAAGAGAAGUGUGCGAACGGCAGUGAA
(((((((....((((....)))).((....))..))))))).(((((....((((((.((((........))))))).)))...)))))... ( -29.00)
>DroSim_CAF1 90890 80 + 1
GCGACAGCAACGCGACAACUUGCAGCAGCAACAUCUGUUGCAACUGCAAUAUCGACGGCUGCAGCGAAGAGAAGUGUGC------------A
((..((((....(((....((((((..(((((....)))))..))))))..)))...))))..))..............------------. ( -27.30)
>consensus
GCGACAGCAACGCGACAACUUGCAGCAGCAACAUCUGUUGCAACUGCAAUAUCGACGGCUUCAGCGAAGAGAAGUGUGCGAA_GGCAGUG_A
((...(((....(((....((((((..(((((....)))))..))))))..)))...)))...))........................... (-21.17 = -21.07 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 8,859,038 – 8,859,130
Length 92
Sequences 3
Columns 92
Reading direction reverse
Mean pairwise identity 85.51
Mean single sequence MFE -27.90
Consensus MFE -23.34
Energy contribution -23.23
Covariance contribution -0.11
Combinations/Pair 1.09
Mean z-score -1.52
Structure conservation index 0.84
SVM decision value -0.02
SVM RNA-class probability 0.524936
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8859038 92 - 22224390
UGCACUGCCAUUCGCACAGUUCUCUUCGCUUAAGCCGUCGAUGUUGCAGUUGCAAUAGAUGUUGCUGCUGCAAGUUGUCGCGUUGCUGUCGC
.((((.((....(((............((....)).(.((((.(((((((.(((((....))))).))))))))))).))))..)).)).)) ( -26.70)
>DroSec_CAF1 99004 92 - 1
UUCACUGCCGUUCGCACACUUCUCUUCACUGAAGCCGUCGAUAUUGCAGUUGCAACAGAUGCUGCUGCUGCAAGUUGUCGCGUUGCUGUCGC
...((.((....(((...((((........))))..(.((((.(((((((.(((.(....).))).))))))))))).))))..)).))... ( -24.90)
>DroSim_CAF1 90890 80 - 1
U------------GCACACUUCUCUUCGCUGCAGCCGUCGAUAUUGCAGUUGCAACAGAUGUUGCUGCUGCAAGUUGUCGCGUUGCUGUCGC
.------------..............((.(((((((.((((((((((((.(((((....))))).)))))))..)))))))..))))).)) ( -32.10)
>consensus
U_CACUGCC_UUCGCACACUUCUCUUCGCUGAAGCCGUCGAUAUUGCAGUUGCAACAGAUGUUGCUGCUGCAAGUUGUCGCGUUGCUGUCGC
................................(((((.((((((((((((.(((((....))))).)))))))..)))))))..)))..... (-23.34 = -23.23 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:56:10 2006