Locus 3566

Sequence ID	2L_DroMel_CAF1
Location	10,396,906 – 10,397,012
Length	106
Max. P	0.998326

overview

Window 7

Location	10,396,906 – 10,397,012
Length	106
Sequences	5
Columns	107
Reading direction	forward
Mean pairwise identity	98.12
Mean single sequence MFE	-19.78
Consensus MFE	-18.46
Energy contribution	-18.46
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-2.30
Structure conservation index	0.93
SVM decision value	3.07
SVM RNA-class probability	0.998326
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10396906 106 + 22407834
CAUCAGCUAUUCAGAGUGAAUAAAGAAAACCUACAUCACACCUACAAUCAUACGUGUUACGUGUACAUACAUAUGUGUAUGUAUAUA-UACUCUUGCUUAUGUACAU
(((.(((.....((((((...................((((.((......)).))))...(((((((((((....))))))))))).-)))))).))).)))..... ( -22.30)
>DroSec_CAF1 11857 106 + 1
CAUCAACUAUUCAGAGUGAAUAAAGAAAACCUACAUCACACCUACAAUCAUACGUGUUACGUGUACAUACAUAUGUGUAUGUAUAUA-UACUCUUGCUUAUGUACAU
............((((((...................((((.((......)).))))...(((((((((((....))))))))))).-))))))(((....)))... ( -18.70)
>DroSim_CAF1 11754 106 + 1
CAUCAACUAUUCAGAGUGAAUAAAGAAAACCUACAUCACACCUACAAUCAUACGUGUUACGUGUACAUACAUAUGUGUAUGUAUAUA-UACUCUUGCUUAUGUACAU
............((((((...................((((.((......)).))))...(((((((((((....))))))))))).-))))))(((....)))... ( -18.70)
>DroEre_CAF1 12449 107 + 1
CAUCAAAUAUUCAGAGUGAAUAAAGAAAACCUACAUCACACUUACAAUCAUACGUGUUACGUGUACAUACAUAUGUGUAUGUAUAUAUUACUCUUGCUUAUGUACAU
......(((..((((((((..................((((.((......)).))))...(((((((((((....))))))))))).)))))).))..)))...... ( -20.40)
>DroYak_CAF1 12499 106 + 1
CAUCAACUAUUCAGAGUGAAUAAAGAAAACCUACAUCACACCUACAAUCAUACGUGUUACGUGUACAUACAUAUGUGUAUGUAUAUA-UACUCUUGCUUAUGUAUAU
............((((((...................((((.((......)).))))...(((((((((((....))))))))))).-))))))(((....)))... ( -18.80)
>consensus
CAUCAACUAUUCAGAGUGAAUAAAGAAAACCUACAUCACACCUACAAUCAUACGUGUUACGUGUACAUACAUAUGUGUAUGUAUAUA_UACUCUUGCUUAUGUACAU
............((((((...................((((.((......)).))))...(((((((((((....)))))))))))..))))))(((....)))... (-18.46 = -18.46 +   0.00)

alignment

secondary structure

dotplot

Window 8

Location	10,396,906 – 10,397,012
Length	106
Sequences	5
Columns	107
Reading direction	reverse
Mean pairwise identity	98.12
Mean single sequence MFE	-23.00
Consensus MFE	-22.00
Energy contribution	-22.04
Covariance contribution	0.04
Combinations/Pair	1.03
Mean z-score	-1.39
Structure conservation index	0.96
SVM decision value	0.84
SVM RNA-class probability	0.863473
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10396906 106 - 22407834
AUGUACAUAAGCAAGAGUA-UAUAUACAUACACAUAUGUAUGUACACGUAACACGUAUGAUUGUAGGUGUGAUGUAGGUUUUCUUUAUUCACUCUGAAUAGCUGAUG
.....(((.((((((((..-((((((((((....)))))))))).((((.((((.(((....))).)))).)))).....)))))(((((.....)))))))).))) ( -25.50)
>DroSec_CAF1 11857 106 - 1
AUGUACAUAAGCAAGAGUA-UAUAUACAUACACAUAUGUAUGUACACGUAACACGUAUGAUUGUAGGUGUGAUGUAGGUUUUCUUUAUUCACUCUGAAUAGUUGAUG
.....(((.((((((((..-((((((((((....)))))))))).((((.((((.(((....))).)))).)))).....)))))(((((.....)))))))).))) ( -23.10)
>DroSim_CAF1 11754 106 - 1
AUGUACAUAAGCAAGAGUA-UAUAUACAUACACAUAUGUAUGUACACGUAACACGUAUGAUUGUAGGUGUGAUGUAGGUUUUCUUUAUUCACUCUGAAUAGUUGAUG
.....(((.((((((((..-((((((((((....)))))))))).((((.((((.(((....))).)))).)))).....)))))(((((.....)))))))).))) ( -23.10)
>DroEre_CAF1 12449 107 - 1
AUGUACAUAAGCAAGAGUAAUAUAUACAUACACAUAUGUAUGUACACGUAACACGUAUGAUUGUAAGUGUGAUGUAGGUUUUCUUUAUUCACUCUGAAUAUUUGAUG
.....((......(((((((((..((((((((....)))))))).((((.((((.(((....))).)))).))))..........)))).))))).......))... ( -20.22)
>DroYak_CAF1 12499 106 - 1
AUAUACAUAAGCAAGAGUA-UAUAUACAUACACAUAUGUAUGUACACGUAACACGUAUGAUUGUAGGUGUGAUGUAGGUUUUCUUUAUUCACUCUGAAUAGUUGAUG
.....(((.((((((((..-((((((((((....)))))))))).((((.((((.(((....))).)))).)))).....)))))(((((.....)))))))).))) ( -23.10)
>consensus
AUGUACAUAAGCAAGAGUA_UAUAUACAUACACAUAUGUAUGUACACGUAACACGUAUGAUUGUAGGUGUGAUGUAGGUUUUCUUUAUUCACUCUGAAUAGUUGAUG
.....(((.(((.(((((..((((((((((....)))))))))).((((.((((.(((....))).)))).))))...............))))).....))).))) (-22.00 = -22.04 +   0.04)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:55:47 2006