Locus 121

Sequence ID	3R_DroMel_CAF1
Location	677,602 – 677,705
Length	103
Max. P	0.720570

overview

Window 7

Location	677,602 – 677,705
Length	103
Sequences	3
Columns	108
Reading direction	forward
Mean pairwise identity	90.12
Mean single sequence MFE	-22.49
Consensus MFE	-15.29
Energy contribution	-14.74
Covariance contribution	-0.55
Combinations/Pair	1.15
Mean z-score	-3.33
Structure conservation index	0.68
SVM decision value	0.40
SVM RNA-class probability	0.720570
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 677602 103 + 27905053
AUAUACAUA-----CAGCAUAGUGUUAUACCAUAUUAUCACAAAGCAAAUGUUUUGUAUGAAAAUAAAUUUAUACAUUUUUGCCCUAUGCAGGCGAAGUAUCACUUCA
.........-----..(((((((((.(((......))).)))..(((((.....((((((((......))))))))..))))).))))))....((((.....)))). ( -21.60)
>DroSec_CAF1 96908 108 + 1
AUAUGCCUAUGGACCAGCCUUAUGUUAUACCAUAUUAUCACAAAACAAAUGUUUUGUAUGAAAAUAAAUUUAUACAUUUUCGCCCCAUCCAGGCGAAGUAUCACUUCA
....((((((((....((...((((.......((((.(((((((((....)))))))..)).)))).......))))....)).))))..))))((((.....)))). ( -22.24)
>DroSim_CAF1 95316 108 + 1
AUAUGCCUAUGGACCAGCAUAAUGUUAUACCAUAUUAUCACAAAACAAAUGUUUUGUAUGAAAAUAGAUUUAUACAUUUUCUCCCCAUCCAGGCGAAGUAUCACUUCA
....((((((((...((...(((((.......((((.(((((((((....)))))))..)).)))).......)))))..))..))))..))))((((.....)))). ( -23.64)
>consensus
AUAUGCCUAUGGACCAGCAUAAUGUUAUACCAUAUUAUCACAAAACAAAUGUUUUGUAUGAAAAUAAAUUUAUACAUUUUCGCCCCAUCCAGGCGAAGUAUCACUUCA
..((((...............((((.......((((.(((((((((....)))))))..)).)))).......)))).((((((.......))))))))))....... (-15.29 = -14.74 +  -0.55)

alignment

secondary structure

dotplot

Window 8

Location	677,602 – 677,705
Length	103
Sequences	3
Columns	108
Reading direction	reverse
Mean pairwise identity	90.12
Mean single sequence MFE	-28.47
Consensus MFE	-18.19
Energy contribution	-20.30
Covariance contribution	2.11
Combinations/Pair	1.03
Mean z-score	-3.15
Structure conservation index	0.64
SVM decision value	-0.02
SVM RNA-class probability	0.524692
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 677602 103 - 27905053
UGAAGUGAUACUUCGCCUGCAUAGGGCAAAAAUGUAUAAAUUUAUUUUCAUACAAAACAUUUGCUUUGUGAUAAUAUGGUAUAACACUAUGCUG-----UAUGUAUAU
.((((.....)))).....(((((((((((..(((((.((......)).))))).....)))))))))))...((((((((((....)))))))-----)))...... ( -23.10)
>DroSec_CAF1 96908 108 - 1
UGAAGUGAUACUUCGCCUGGAUGGGGCGAAAAUGUAUAAAUUUAUUUUCAUACAAAACAUUUGUUUUGUGAUAAUAUGGUAUAACAUAAGGCUGGUCCAUAGGCAUAU
.((((.....))))((((((((.((.((((((((........))))))).((((((((....))))))))....((((......)))).).)).))))..)))).... ( -33.30)
>DroSim_CAF1 95316 108 - 1
UGAAGUGAUACUUCGCCUGGAUGGGGAGAAAAUGUAUAAAUCUAUUUUCAUACAAAACAUUUGUUUUGUGAUAAUAUGGUAUAACAUUAUGCUGGUCCAUAGGCAUAU
.((((.....))))((((((((.((.(...(((((.((.(((((((.((..(((((((....))))))))).)))).))).))))))).).)).))))..)))).... ( -29.00)
>consensus
UGAAGUGAUACUUCGCCUGGAUGGGGCGAAAAUGUAUAAAUUUAUUUUCAUACAAAACAUUUGUUUUGUGAUAAUAUGGUAUAACAUUAUGCUGGUCCAUAGGCAUAU
.((((.....))))((((((((.((..(((((((........))))))).((((((((....)))))))).....................)).))))..)))).... (-18.19 = -20.30 +   2.11)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:33:43 2006