Locus 6962

Sequence ID 3L_DroMel_CAF1
Location 18,804,133 – 18,804,242
Length 109
Max. P 0.983718
window11288 window11289

overview

Window 8

Location 18,804,133 – 18,804,242
Length 109
Sequences 3
Columns 109
Reading direction forward
Mean pairwise identity 96.32
Mean single sequence MFE -24.92
Consensus MFE -23.29
Energy contribution -23.62
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -3.51
Structure conservation index 0.93
SVM decision value 1.95
SVM RNA-class probability 0.983718
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 18804133 109 + 23771897
UCGCACAACUUUCGAAGAAAACAGCUGCUAUGGUUUCACAAAUGAAACCAUAAAGUUAAAUGCUUCAGCGCAAAUUUAAAAACACUGGCACUUAUUUACAUAGCUAGUA
.............((((.....((((..((((((((((....)))))))))).)))).....)))).................((((((.............)))))). ( -25.22)
>DroSec_CAF1 8393 108 + 1
UCGCACAA-UUUGGAAGAAAACAGCUGCUAUGGUUUCACAAAUAAAACCAUAAAGUUAAAUGCUUCACCGCAAAUUUAAAAACACUGGCACUUAUUUAUAUAGCUAGUA
..((.(..-...)((((.....((((..((((((((........)))))))).)))).....))))...))............((((((.............)))))). ( -21.32)
>DroSim_CAF1 8383 108 + 1
UCGCACAA-UUUCGAAGAAAACAGCUGCUAUGGUUUCACAAAUGAAACCAUAAAGUUAAAUGCUUCAGUGCAAAUUUAAAAACACUGGCACUUAUUUACAUAGCUAGUA
..((((..-....((((.....((((..((((((((((....)))))))))).)))).....)))).))))............((((((.............)))))). ( -28.22)
>consensus
UCGCACAA_UUUCGAAGAAAACAGCUGCUAUGGUUUCACAAAUGAAACCAUAAAGUUAAAUGCUUCAGCGCAAAUUUAAAAACACUGGCACUUAUUUACAUAGCUAGUA
.............((((.....((((..((((((((((....)))))))))).)))).....)))).................((((((.............)))))). (-23.29 = -23.62 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 18,804,133 – 18,804,242
Length 109
Sequences 3
Columns 109
Reading direction reverse
Mean pairwise identity 96.32
Mean single sequence MFE -27.77
Consensus MFE -27.17
Energy contribution -27.07
Covariance contribution -0.11
Combinations/Pair 1.07
Mean z-score -2.51
Structure conservation index 0.98
SVM decision value 1.76
SVM RNA-class probability 0.975772
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 18804133 109 - 23771897
UACUAGCUAUGUAAAUAAGUGCCAGUGUUUUUAAAUUUGCGCUGAAGCAUUUAACUUUAUGGUUUCAUUUGUGAAACCAUAGCAGCUGUUUUCUUCGAAAGUUGUGCGA
.....((........(((((((((((((..........))))))..)))))))....((((((((((....))))))))))((((((............)))))))).. ( -30.70)
>DroSec_CAF1 8393 108 - 1
UACUAGCUAUAUAAAUAAGUGCCAGUGUUUUUAAAUUUGCGGUGAAGCAUUUAACUUUAUGGUUUUAUUUGUGAAACCAUAGCAGCUGUUUUCUUCCAAA-UUGUGCGA
...(((((.......(((((((((.(((..........))).))..)))))))...(((((((((((....))))))))))).)))))............-........ ( -22.80)
>DroSim_CAF1 8383 108 - 1
UACUAGCUAUGUAAAUAAGUGCCAGUGUUUUUAAAUUUGCACUGAAGCAUUUAACUUUAUGGUUUCAUUUGUGAAACCAUAGCAGCUGUUUUCUUCGAAA-UUGUGCGA
.....(((((((((((((((((((((((..........))))))..)))))))..)))))(((((((....)))))))))))).((.(((((....))))-)...)).. ( -29.80)
>consensus
UACUAGCUAUGUAAAUAAGUGCCAGUGUUUUUAAAUUUGCGCUGAAGCAUUUAACUUUAUGGUUUCAUUUGUGAAACCAUAGCAGCUGUUUUCUUCGAAA_UUGUGCGA
...(((((.......(((((((((((((..........))))))..)))))))...(((((((((((....))))))))))).)))))..................... (-27.17 = -27.07 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:34:11 2006