Locus 769

Sequence ID	3R_DroMel_CAF1
Location	2,674,527 – 2,674,645
Length	118
Max. P	0.886619

overview

Window 4

Location	2,674,527 – 2,674,645
Length	118
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	77.97
Mean single sequence MFE	-35.34
Consensus MFE	-19.71
Energy contribution	-21.29
Covariance contribution	1.58
Combinations/Pair	1.17
Mean z-score	-2.13
Structure conservation index	0.56
SVM decision value	0.94
SVM RNA-class probability	0.886619
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2674527 118 + 27905053
UCCCACAAAUUGUAUCUCACGGAUACGAAUACGACACAUCGGUGUGUGUGUGUGUGAGUUCGAAAGAGCGGUAGUUCGAAAAGCACCGCUCUCGCGUGUUUCGAACAAGUUCUUAUUG--
...((((..(((((((.....)))))))((((.(((((....))))))))).)))).(((((((((((((((.(((.....))))))))))).......)))))))............-- ( -38.61)
>DroSec_CAF1 33960 92 + 1
UCCCACAAAUUGUA------------------------UCGCU--GUGUGUGUGUGAGUUCGAAAGAGCAGCAGUUCGAAAAACACCUCUCUCGCGUGUUUCGAACAAGUUCUUAUUG--
...((((....(..------------------------...).--...))))(((..((((....)))).)))(((((((..(((((......).)))))))))))............-- ( -22.40)
>DroSim_CAF1 27061 116 + 1
UCCCACAAAUUGUAUCUCACGGAUACGAAUACGACACAUCGCU--GUGUGUGUGUGAGUUCGAAAGAGCAGCAGUUCGAAAAACACCGCUCUCGCGUGUUUCGAACAAGUUCUUAUUG--
...(((...(((((((.....)))))))((((.(((((....)--))))))))))).((((....))))....(((((((..((((.((....)))))))))))))............-- ( -36.60)
>DroEre_CAF1 27214 115 + 1
UGCCACAAAGUGUAUCUCACGGAUACGUAUCCGAGACAUCGGUGUGUG--CGUGUGAGUUCGAAAGAGCGGUUGUUCGAAAAGCACCGCUCUC-CGCUUUUCGAACAAGUUCUUAUUG--
.(((..........((.((((.(((((...((((....))))))))).--)))).))((((....)))))))((((((((((((.........-.))))))))))))...........-- ( -43.00)
>DroYak_CAF1 34361 117 + 1
UGCCACAAAGUGUAUCUCACGGAUACGUAUACGACACAUCGGUGUGUGUGUGUGUGAGUUCGAAAGAGCGGUUGUUAGAAAAGCACCGCUCUC-CGCUUUUCGAACAAGUUCUUAUUG--
...((((....(((((.....))))).(((((.(((((....)))))))))))))).(((((((((((((((.(((.....))))))))))).-.....)))))))............-- ( -38.30)
>DroAna_CAF1 22049 105 + 1
AGCCACAAAUUGUAUCUCACGGAUACCCA-----------GGCCCGUGUGCGUGUGAGUUCGAAAGAGUGCCACUUCGAAAGAUGGUCCUCUC----AUUUCGAACAAGUUCUUAUUGCU
(((...........((.((((.((((...-----------.....)))).)))).))(((((((((((..(((..((....)))))..)))).----..)))))))...........))) ( -33.10)
>consensus
UCCCACAAAUUGUAUCUCACGGAUACGAAUACGACACAUCGGUGUGUGUGUGUGUGAGUUCGAAAGAGCGGCAGUUCGAAAAACACCGCUCUC_CGUGUUUCGAACAAGUUCUUAUUG__
...((((....(((((.....))))).....(((....)))...........)))).(((((((((((((((.(((.....))))))))))).......))))))).............. (-19.71 = -21.29 +   1.58)

alignment

secondary structure

dotplot

Window 5

Location	2,674,527 – 2,674,645
Length	118
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	77.97
Mean single sequence MFE	-31.04
Consensus MFE	-20.51
Energy contribution	-21.51
Covariance contribution	1.00
Combinations/Pair	1.14
Mean z-score	-1.47
Structure conservation index	0.66
SVM decision value	0.52
SVM RNA-class probability	0.766223
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2674527 118 - 27905053
--CAAUAAGAACUUGUUCGAAACACGCGAGAGCGGUGCUUUUCGAACUACCGCUCUUUCGAACUCACACACACACACACCGAUGUGUCGUAUUCGUAUCCGUGAGAUACAAUUUGUGGGA
--......(((....)))......((.((((((((((.((....)).)))))))))).))..((((((.(((((((......))))).))....((((.(....)))))....)))))). ( -34.60)
>DroSec_CAF1 33960 92 - 1
--CAAUAAGAACUUGUUCGAAACACGCGAGAGAGGUGUUUUUCGAACUGCUGCUCUUUCGAACUCACACACACAC--AGCGA------------------------UACAAUUUGUGGGA
--....((((.(..((((((((.((((.......)))).))))))))....).)))).....((((((.......--.....------------------------.......)))))). ( -19.31)
>DroSim_CAF1 27061 116 - 1
--CAAUAAGAACUUGUUCGAAACACGCGAGAGCGGUGUUUUUCGAACUGCUGCUCUUUCGAACUCACACACACAC--AGCGAUGUGUCGUAUUCGUAUCCGUGAGAUACAAUUUGUGGGA
--......(((....)))......((.(((((((((((((...)))).))))))))).))..((((((.((((((--(....))))).))....((((.(....)))))....)))))). ( -34.20)
>DroEre_CAF1 27214 115 - 1
--CAAUAAGAACUUGUUCGAAAAGCG-GAGAGCGGUGCUUUUCGAACAACCGCUCUUUCGAACUCACACG--CACACACCGAUGUCUCGGAUACGUAUCCGUGAGAUACACUUUGUGGCA
--............((((((......-(((((((((............)))))))))))))))......(--(.((((((((....))))....((((.(....)))))....)))))). ( -36.10)
>DroYak_CAF1 34361 117 - 1
--CAAUAAGAACUUGUUCGAAAAGCG-GAGAGCGGUGCUUUUCUAACAACCGCUCUUUCGAACUCACACACACACACACCGAUGUGUCGUAUACGUAUCCGUGAGAUACACUUUGUGGCA
--............((((((......-(((((((((............)))))))))))))))...((((.(((((((....))))).))....((((.(....)))))....))))... ( -32.70)
>DroAna_CAF1 22049 105 - 1
AGCAAUAAGAACUUGUUCGAAAU----GAGAGGACCAUCUUUCGAAGUGGCACUCUUUCGAACUCACACGCACACGGGCC-----------UGGGUAUCCGUGAGAUACAAUUUGUGGCU
(((.(((((.....((((((...----(((((..((((........))))..))))))))))).........(((((((.-----------...))..)))))........))))).))) ( -29.30)
>consensus
__CAAUAAGAACUUGUUCGAAACACG_GAGAGCGGUGCUUUUCGAACUACCGCUCUUUCGAACUCACACACACACACACCGAUGUGUCGUAUACGUAUCCGUGAGAUACAAUUUGUGGCA
..............((((((.......(((((((((............)))))))))))))))(((((...........(((....))).....(((((.....)))))....))))).. (-20.51 = -21.51 +   1.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:51:38 2006