Locus 7271

Sequence ID	3R_DroMel_CAF1
Location	19,199,447 – 19,199,545
Length	98
Max. P	0.927064

overview

Window 6

Location	19,199,447 – 19,199,545
Length	98
Sequences	5
Columns	98
Reading direction	forward
Mean pairwise identity	81.55
Mean single sequence MFE	-23.06
Consensus MFE	-13.04
Energy contribution	-13.84
Covariance contribution	0.80
Combinations/Pair	1.22
Mean z-score	-2.00
Structure conservation index	0.57
SVM decision value	0.21
SVM RNA-class probability	0.636949
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 19199447 98 + 27905053
GUGCCUUUUGGCGGUUUUGCUCUCAACAGUUGAGAGUGCUGAAAAACGAAAGGGUAAGUUGAAGUAUUUUAUUAUUUUAUUCACAAAAGGCAAUUAGU
.(((((((((.((((...(((((((.....))))))))))).....(....).......(((((((......)))))))....)))))))))...... ( -28.30)
>DroSec_CAF1 11158 90 + 1
GUGCCUUUUGGCGGUUUUUCUCUCAACAGUUGAGAGUGCAGAAAAACGAAAGGGUAAGUUGAAGUAUUU--------UAUACACAAAAGGCAAUUAGU
.(((((((((...((((((((((((.....))))).....)))))))................((((..--------.)))).)))))))))...... ( -22.80)
>DroSim_CAF1 11775 90 + 1
GUGCCUUUUGGCGGUUUUGCUCUCAACAGUUGAGAGUGCAGAAAAACGAAAGGGUAAGUUGAAGUAUUU--------UAUUCACAAAAGGCAAUUAGU
.(((((((((.((.(((((((((((.....)))))..))))))...))...(((((((.........))--------))))).)))))))))...... ( -27.40)
>DroEre_CAF1 14647 90 + 1
GUGCCUUUUGGCGGUUUUUGUCUCAACAGUUCAGAGUGCAGGAGAGCGGAAGGGUAAUUUGAAGUAUUU--------UAUUUACAUAUUGUAAAAAGU
.((((((((.((..((((((((((.........))).))))))).)).)))))))).............--------..(((((.....))))).... ( -22.40)
>DroYak_CAF1 15713 90 + 1
UUGCCCUUUGGGAUAUUUUGUCUCAAUUGUUCAGAGUGGAAGAAAACGGAAAAGUAAGUUUAAGUAUUU--------UAUUUGCAAAAGGUAAUAAGU
(((((..(((((((.....)))))))((((...((((((((..((((..........)))).....)))--------)))))))))..)))))..... ( -14.40)
>consensus
GUGCCUUUUGGCGGUUUUUCUCUCAACAGUUGAGAGUGCAGAAAAACGAAAGGGUAAGUUGAAGUAUUU________UAUUCACAAAAGGCAAUUAGU
.((((((((.(...((((((.(((.........))).))))))...).)))))))).......................................... (-13.04 = -13.84 +   0.80)

alignment

secondary structure

dotplot

Window 7

Location	19,199,447 – 19,199,545
Length	98
Sequences	5
Columns	98
Reading direction	reverse
Mean pairwise identity	81.55
Mean single sequence MFE	-15.64
Consensus MFE	-9.84
Energy contribution	-11.60
Covariance contribution	1.76
Combinations/Pair	1.12
Mean z-score	-2.37
Structure conservation index	0.63
SVM decision value	1.18
SVM RNA-class probability	0.927064
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 19199447 98 - 27905053
ACUAAUUGCCUUUUGUGAAUAAAAUAAUAAAAUACUUCAACUUACCCUUUCGUUUUUCAGCACUCUCAACUGUUGAGAGCAAAACCGCCAAAAGGCAC
......(((((((((.......................................((((((((........))))))))((......))))))))))). ( -19.40)
>DroSec_CAF1 11158 90 - 1
ACUAAUUGCCUUUUGUGUAUA--------AAAUACUUCAACUUACCCUUUCGUUUUUCUGCACUCUCAACUGUUGAGAGAAAAACCGCCAAAAGGCAC
......(((((((((.((...--------......................((......)).((((((.....)))))).......))))))))))). ( -21.10)
>DroSim_CAF1 11775 90 - 1
ACUAAUUGCCUUUUGUGAAUA--------AAAUACUUCAACUUACCCUUUCGUUUUUCUGCACUCUCAACUGUUGAGAGCAAAACCGCCAAAAGGCAC
......(((((((((((((..--------......))))............((((...(((..(((((.....))))))))))))...))))))))). ( -19.60)
>DroEre_CAF1 14647 90 - 1
ACUUUUUACAAUAUGUAAAUA--------AAAUACUUCAAAUUACCCUUCCGCUCUCCUGCACUCUGAACUGUUGAGACAAAAACCGCCAAAAGGCAC
....(((((.....)))))..--------......................(.((((..(((........))).))))).......(((....))).. ( -10.80)
>DroYak_CAF1 15713 90 - 1
ACUUAUUACCUUUUGCAAAUA--------AAAUACUUAAACUUACUUUUCCGUUUUCUUCCACUCUGAACAAUUGAGACAAAAUAUCCCAAAGGGCAA
........(((((((......--------........((((..........)))).......(((.........)))...........)))))))... (  -7.30)
>consensus
ACUAAUUGCCUUUUGUGAAUA________AAAUACUUCAACUUACCCUUUCGUUUUUCUGCACUCUCAACUGUUGAGAGAAAAACCGCCAAAAGGCAC
......(((((((((....................................((......)).((((((.....)))))).........))))))))). ( -9.84 = -11.60 +   1.76)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:41:48 2006