Locus 7699

Sequence ID	3L_DroMel_CAF1
Location	20,599,750 – 20,599,859
Length	109
Max. P	0.718828

overview

Window 7

Location	20,599,750 – 20,599,859
Length	109
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	83.77
Mean single sequence MFE	-32.60
Consensus MFE	-24.64
Energy contribution	-25.36
Covariance contribution	0.72
Combinations/Pair	1.24
Mean z-score	-1.57
Structure conservation index	0.76
SVM decision value	0.06
SVM RNA-class probability	0.564283
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20599750 109 + 23771897
GUCUUCAAUUGUUGGGCCUGUCACUCCAUGUGGCAGAUGAUUCCCCGACUUUUGCAUGUCCAAC----UUUCUGGACUUUCUGUUCUGGACUU-------UCUGUGGGCCCGUCAAUCGA
....((.((((.(((((((..(((.....)))(((((....(((..(((........(((((..----....))))).....)))..)))...-------)))))))))))).)))).)) ( -34.32)
>DroSec_CAF1 44461 109 + 1
GUCUUCAAUUGUUGGGCCUGUCACUCCAUGUGGCAGAUGAUUCCCCGACUUUUGCAUGUCCAAC----UUUCUGGACUUUCUGUUCUGGACUU-------UCUGUGGGCCCGUCAAUCGA
....((.((((.(((((((..(((.....)))(((((....(((..(((........(((((..----....))))).....)))..)))...-------)))))))))))).)))).)) ( -34.32)
>DroAna_CAF1 66759 118 + 1
GGCUUCAAUUAUUGGGCCUGUCACUCCAGCUGGCAGAUGAUUCCUGGAUAUAUCCAUAACCGAUCCAUGGUCUGGACUUG--GACUUGGACUUGGACUGGACAGUGGGCUUUUAUGUCAG
(((((........)))))...((((((((...............((((....))))...((((((((.(((((......)--)))))))).)))).)))))..)))(((......))).. ( -32.10)
>DroSim_CAF1 37899 109 + 1
GUCUUCAAUUGUUGGGCCUGUCACUCCAUGUGGCAGAUGAUUCCCCGACUUUUGCAUGUCCAAC----UUUCUGGACUUUCUGUUCUGGACUU-------UCUGUGGGCCCGUCAAUCGA
....((.((((.(((((((..(((.....)))(((((....(((..(((........(((((..----....))))).....)))..)))...-------)))))))))))).)))).)) ( -34.32)
>DroEre_CAF1 37047 108 + 1
GUCUUCAAUUGUUGCGCCUGUCACUCCAUGUGGCAGAUGAUUCCCCGACUUUUGCAUGUCCAAC----UUUCUGGACUUUCUGUUCUGGACAU-------U-UGUGGGCCCGUCAAUCGA
....((.((((.((.((((..(((.....)))(((((((..(((..(((........(((((..----....))))).....)))..))))))-------)-))))))).)).)))).)) ( -27.92)
>consensus
GUCUUCAAUUGUUGGGCCUGUCACUCCAUGUGGCAGAUGAUUCCCCGACUUUUGCAUGUCCAAC____UUUCUGGACUUUCUGUUCUGGACUU_______UCUGUGGGCCCGUCAAUCGA
....((.((((.((((((((((((.....))))).......(((..(((........(((((..........))))).....)))..)))...............))))))).)))).)) (-24.64 = -25.36 +   0.72)

alignment

secondary structure

dotplot

Window 8

Location	20,599,750 – 20,599,859
Length	109
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	83.77
Mean single sequence MFE	-31.35
Consensus MFE	-21.95
Energy contribution	-23.47
Covariance contribution	1.52
Combinations/Pair	1.10
Mean z-score	-1.87
Structure conservation index	0.70
SVM decision value	0.39
SVM RNA-class probability	0.718828
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20599750 109 - 23771897
UCGAUUGACGGGCCCACAGA-------AAGUCCAGAACAGAAAGUCCAGAAA----GUUGGACAUGCAAAAGUCGGGGAAUCAUCUGCCACAUGGAGUGACAGGCCCAACAAUUGAAGAC
(((((((..(((((..((((-------...(((.((.......((((((...----.)))))).........))..)))....)))).(((.....)))...)))))..))))))).... ( -34.09)
>DroSec_CAF1 44461 109 - 1
UCGAUUGACGGGCCCACAGA-------AAGUCCAGAACAGAAAGUCCAGAAA----GUUGGACAUGCAAAAGUCGGGGAAUCAUCUGCCACAUGGAGUGACAGGCCCAACAAUUGAAGAC
(((((((..(((((..((((-------...(((.((.......((((((...----.)))))).........))..)))....)))).(((.....)))...)))))..))))))).... ( -34.09)
>DroAna_CAF1 66759 118 - 1
CUGACAUAAAAGCCCACUGUCCAGUCCAAGUCCAAGUC--CAAGUCCAGACCAUGGAUCGGUUAUGGAUAUAUCCAGGAAUCAUCUGCCAGCUGGAGUGACAGGCCCAAUAAUUGAAGCC
...........((((((..((((((....(((((...(--(..(((((.....))))).))...))))).....((((.....))))...)))))))))...)))............... ( -26.40)
>DroSim_CAF1 37899 109 - 1
UCGAUUGACGGGCCCACAGA-------AAGUCCAGAACAGAAAGUCCAGAAA----GUUGGACAUGCAAAAGUCGGGGAAUCAUCUGCCACAUGGAGUGACAGGCCCAACAAUUGAAGAC
(((((((..(((((..((((-------...(((.((.......((((((...----.)))))).........))..)))....)))).(((.....)))...)))))..))))))).... ( -34.09)
>DroEre_CAF1 37047 108 - 1
UCGAUUGACGGGCCCACA-A-------AUGUCCAGAACAGAAAGUCCAGAAA----GUUGGACAUGCAAAAGUCGGGGAAUCAUCUGCCACAUGGAGUGACAGGCGCAACAAUUGAAGAC
(((((((..(.((((((.-.-------...((((.........((((((...----.))))))........((.(.(((....))).).)).)))))))...))).)..))))))).... ( -28.10)
>consensus
UCGAUUGACGGGCCCACAGA_______AAGUCCAGAACAGAAAGUCCAGAAA____GUUGGACAUGCAAAAGUCGGGGAAUCAUCUGCCACAUGGAGUGACAGGCCCAACAAUUGAAGAC
(((((((..(((((................(((.((.......((((((........)))))).........))..))).((((...((....)).))))..)))))..))))))).... (-21.95 = -23.47 +   1.52)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:54:15 2006