Locus 8329

Sequence ID	3R_DroMel_CAF1
Location	22,235,397 – 22,235,498
Length	101
Max. P	0.919196

overview

Window 9

Location	22,235,397 – 22,235,498
Length	101
Sequences	4
Columns	101
Reading direction	forward
Mean pairwise identity	97.52
Mean single sequence MFE	-34.42
Consensus MFE	-30.88
Energy contribution	-31.62
Covariance contribution	0.75
Combinations/Pair	1.00
Mean z-score	-3.51
Structure conservation index	0.90
SVM decision value	1.13
SVM RNA-class probability	0.919196
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22235397 101 + 27905053
GAAUGGCGUGGGUGGUCCUACGCCCACGGCAAGUGGCCAAAAUGCAAAUGCACAAAAAGACCAAAACUGCAGUGGGUAACGACAGCAACAACAAUAUGGCA
...((.((((((((......)))))))).))....((((...(((....)))...............(((.((.(....).)).))).........)))). ( -32.30)
>DroSec_CAF1 7783 101 + 1
GAAUGGCGUGGGUGGUCCUACGCCCCCGGCAAGUGGCCAAAAUGCAAAUGCACAAAAAGGCCAAAACUGCAGUGGGUAACGACAGCAACAACAAUAUGCCA
....((((((((....))))))))...((((..(((((....(((....)))......)))))....(((.((.(....).)).))).........)))). ( -36.10)
>DroSim_CAF1 7796 101 + 1
GAAUGGCGUGGGUGGUCCUACGCCCCCGGCAAGUGGCCAAAAUGCAAAUGCACAAAAAGGCCAAAACUGCAGUGGGUAACGACAGCAACAACAAUAUGCCA
....((((((((....))))))))...((((..(((((....(((....)))......)))))....(((.((.(....).)).))).........)))). ( -36.10)
>DroEre_CAF1 14870 101 + 1
GAAUCGCGUGGGUGGUCCUACGCCCCCGGCAAAUGGCCAAAAUGCAAAUGCACAAAAAGGCCAAAACUGCAGUGGGUAACGACAGCAACAACAAUAUGCCA
.....(((((((....)))))))....((((..(((((....(((....)))......)))))....(((.((.(....).)).))).........)))). ( -33.20)
>consensus
GAAUGGCGUGGGUGGUCCUACGCCCCCGGCAAGUGGCCAAAAUGCAAAUGCACAAAAAGGCCAAAACUGCAGUGGGUAACGACAGCAACAACAAUAUGCCA
....((((((((....))))))))...((((..(((((....(((....)))......)))))....(((.((.(....).)).))).........)))). (-30.88 = -31.62 +   0.75)

alignment

secondary structure

dotplot

Window 0

Location	22,235,397 – 22,235,498
Length	101
Sequences	4
Columns	101
Reading direction	reverse
Mean pairwise identity	97.52
Mean single sequence MFE	-33.17
Consensus MFE	-30.29
Energy contribution	-30.60
Covariance contribution	0.31
Combinations/Pair	1.04
Mean z-score	-2.10
Structure conservation index	0.91
SVM decision value	0.69
SVM RNA-class probability	0.823670
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22235397 101 - 27905053
UGCCAUAUUGUUGUUGCUGUCGUUACCCACUGCAGUUUUGGUCUUUUUGUGCAUUUGCAUUUUGGCCACUUGCCGUGGGCGUAGGACCACCCACGCCAUUC
.((.(((....))).))..........(((.((((...(((((.....((((....))))...))))).)))).)))(((((.((....)).))))).... ( -29.50)
>DroSec_CAF1 7783 101 - 1
UGGCAUAUUGUUGUUGCUGUCGUUACCCACUGCAGUUUUGGCCUUUUUGUGCAUUUGCAUUUUGGCCACUUGCCGGGGGCGUAGGACCACCCACGCCAUUC
.((((..........(((((.((.....)).)))))..(((((.....((((....))))...)))))..))))...(((((.((....)).))))).... ( -34.30)
>DroSim_CAF1 7796 101 - 1
UGGCAUAUUGUUGUUGCUGUCGUUACCCACUGCAGUUUUGGCCUUUUUGUGCAUUUGCAUUUUGGCCACUUGCCGGGGGCGUAGGACCACCCACGCCAUUC
.((((..........(((((.((.....)).)))))..(((((.....((((....))))...)))))..))))...(((((.((....)).))))).... ( -34.30)
>DroEre_CAF1 14870 101 - 1
UGGCAUAUUGUUGUUGCUGUCGUUACCCACUGCAGUUUUGGCCUUUUUGUGCAUUUGCAUUUUGGCCAUUUGCCGGGGGCGUAGGACCACCCACGCGAUUC
.((((.........))))(((....(((.(.((((...(((((.....((((....))))...))))).)))).))))((((.((....)).))))))).. ( -34.60)
>consensus
UGGCAUAUUGUUGUUGCUGUCGUUACCCACUGCAGUUUUGGCCUUUUUGUGCAUUUGCAUUUUGGCCACUUGCCGGGGGCGUAGGACCACCCACGCCAUUC
.((((..........(((((.((.....)).)))))..(((((.....((((....))))...)))))..))))...(((((.((....)).))))).... (-30.29 = -30.60 +   0.31)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:09:00 2006