Locus 5108

Sequence ID	3L_DroMel_CAF1
Location	14,016,362 – 14,016,481
Length	119
Max. P	0.829471

overview

Window 2

Location	14,016,362 – 14,016,481
Length	119
Sequences	4
Columns	119
Reading direction	forward
Mean pairwise identity	86.55
Mean single sequence MFE	-30.42
Consensus MFE	-23.05
Energy contribution	-25.05
Covariance contribution	2.00
Combinations/Pair	1.11
Mean z-score	-1.93
Structure conservation index	0.76
SVM decision value	0.71
SVM RNA-class probability	0.829471
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14016362 119 + 23771897
CAUAUUAUUGACGCAGUGAAUGCGUUCACAGGCUACAUAAGGCGUGAUUGCUAUUUACCUGCUGAACGCACCCAUUGACACUGUUUAAAUACCAAAAGCCCGUCGACAGUAAUACUCCA
..((((.(((((((((((..((((((((((((.((.((..((((....)))))).)))))).))))))))..))))).....((((.........)))).)))))).))))........ ( -31.90)
>DroSec_CAF1 15132 119 + 1
CAUAUUAUUGGCGCAGUGGAUGAGUUCACAGGCUACUUAAGGCGUGAUUGCUAUUAAACUGCUGAACGCACCCAUUGACAGUGUUUAAAUACCAAAAGCCCGCCAACAGUAAUACCCCC
..((((.((((((((((((.((.((((((((.....((((((((....)))).)))).))).))))).)).))))))...((((....))))........)))))).))))........ ( -31.50)
>DroSim_CAF1 15674 119 + 1
CAUAUUAUUGGCGCAGUGGAUGAGUUCACAGGCUUCUUAAGGCGUGAUUGCUAUUUAACUGCUGAACGCACCCAUUGAGAGUGUUUAAAUACCAAAAGCCCGCCAACAGUGUUACCCCA
.(((((.((((((((((((.((.(((((((((((......)))((....)).......))).))))).)).)))))).(.((((....))))).......)))))).)))))....... ( -32.30)
>DroYak_CAF1 15550 110 + 1
CAUAUUAUUG--------GACGCGUUCACAGGCAACUUAUUGCGUGAUUGCUAUCUACCUGCUGAACGCACCCAUUGACACUGUUUAAAUACCAAAAGCCCGUCAACAGUAAU-UCUCA
...(((((((--------...((((((((((((((....))))(((((....))).))))).))))))).....(((((...((((.........))))..))))))))))))-..... ( -26.00)
>consensus
CAUAUUAUUGGCGCAGUGGAUGAGUUCACAGGCUACUUAAGGCGUGAUUGCUAUUUAACUGCUGAACGCACCCAUUGACACUGUUUAAAUACCAAAAGCCCGCCAACAGUAAUACCCCA
..((((.((((((((((((.((((((((((((((......)))((....)).......))).)))))))).)))))).....((((.........)))).)))))).))))........ (-23.05 = -25.05 +   2.00)

alignment

secondary structure

dotplot

Window 3

Location	14,016,362 – 14,016,481
Length	119
Sequences	4
Columns	119
Reading direction	reverse
Mean pairwise identity	86.55
Mean single sequence MFE	-34.11
Consensus MFE	-25.92
Energy contribution	-28.55
Covariance contribution	2.63
Combinations/Pair	1.15
Mean z-score	-1.49
Structure conservation index	0.76
SVM decision value	0.11
SVM RNA-class probability	0.586853
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14016362 119 - 23771897
UGGAGUAUUACUGUCGACGGGCUUUUGGUAUUUAAACAGUGUCAAUGGGUGCGUUCAGCAGGUAAAUAGCAAUCACGCCUUAUGUAGCCUGUGAACGCAUUCACUGCGUCAAUAAUAUG
....((((((.((.((.(((....(((..(((.....)))..)))((((((((((((.(((((..(((((......))..)))...)))))))))))))))))))))).)).)))))). ( -38.00)
>DroSec_CAF1 15132 119 - 1
GGGGGUAUUACUGUUGGCGGGCUUUUGGUAUUUAAACACUGUCAAUGGGUGCGUUCAGCAGUUUAAUAGCAAUCACGCCUUAAGUAGCCUGUGAACUCAUCCACUGCGCCAAUAAUAUG
.((.(((.....((((((((..(((........)))..))))))))(((((.(((((.(((.(((...((......))......))).)))))))).)))))..))).))......... ( -31.30)
>DroSim_CAF1 15674 119 - 1
UGGGGUAACACUGUUGGCGGGCUUUUGGUAUUUAAACACUCUCAAUGGGUGCGUUCAGCAGUUAAAUAGCAAUCACGCCUUAAGAAGCCUGUGAACUCAUCCACUGCGCCAAUAAUAUG
(((.(((.....(((.(((((((((((((.......(((((.....)))))......((.........))......)))...)))))))))).)))........))).)))........ ( -31.32)
>DroYak_CAF1 15550 110 - 1
UGAGA-AUUACUGUUGACGGGCUUUUGGUAUUUAAACAGUGUCAAUGGGUGCGUUCAGCAGGUAGAUAGCAAUCACGCAAUAAGUUGCCUGUGAACGCGUC--------CAAUAAUAUG
...((-..(((((((.....((.....)).....)))))))))..(((..(((((((.(((((((...((......))......))))))))))))))..)--------))........ ( -35.80)
>consensus
UGGGGUAUUACUGUUGACGGGCUUUUGGUAUUUAAACACUGUCAAUGGGUGCGUUCAGCAGGUAAAUAGCAAUCACGCCUUAAGUAGCCUGUGAACGCAUCCACUGCGCCAAUAAUAUG
...........(((((((((((...((.........))..)))..((((((((((((.(((((((...((......))......)))))))))))))))))))...))))))))..... (-25.92 = -28.55 +   2.63)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:42:11 2006