Locus 6945

Sequence ID	X_DroMel_CAF1
Location	17,398,720 – 17,398,819
Length	99
Max. P	0.988719

overview

Window 8

Location	17,398,720 – 17,398,819
Length	99
Sequences	5
Columns	112
Reading direction	forward
Mean pairwise identity	67.07
Mean single sequence MFE	-28.04
Consensus MFE	-3.19
Energy contribution	-6.63
Covariance contribution	3.44
Combinations/Pair	1.38
Mean z-score	-2.64
Structure conservation index	0.11
SVM decision value	0.73
SVM RNA-class probability	0.836189
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17398720 99 + 22224390
GUUUGUUU------UCUCCCCUUUUUGCACCAUUUUCGGAAACGGAAAAGUGGGAGGGAGAGCA-AAAGAUUUGGAAAUUUGUUUUCC----CUUUUUUUUGGGA--GCAUG
........------.(((((.........(((((((((....)))))..))))(((((((((((-((...........))))))))))----)))......))))--).... ( -33.50)
>DroSec_CAF1 113747 92 + 1
GUUUGUUUGUUUUCUCUUCCCUUUUUGCACCAUUUUCGGAAACG------------GGAGAGCA-AAGGAUUUGGAAAUUUGUUUUC-----CUUUUUUUUGGGA--GUGUG
................((((((((((((....((..((....))------------..)).)))-))))....(((((.....))))-----)........))))--).... ( -21.70)
>DroEre_CAF1 115283 95 + 1
--------GUUU--UCUCCCCUUUUUGCGCCAUUUUCGGAAAGAGGGAGUUGGG-GGUAGAGCA-AAAGAUUUGAAAAUUUGUUUUCCG---CUUUUUUUUGGGA--GUGUG
--------....--.(((((((((((.((.......)).))))))((((..((.-((.((((((-((...........)))))))))).---))..)))).))))--).... ( -23.30)
>DroYak_CAF1 107252 107 + 1
GUUCGCUUGUUU--UCUCCCCUUUUUGCGCCAUUUUCGGAAAGGGGGAAGUGGGAGGGGAAGCA-AAAGAUUUGAAAAGUUGUUUUUCUUUAUUUUUUUUUUGGA--GUGUG
...(((((.((.--.(((((((((((.(.((......))...).)))))).)))))..))..((-(((((.....((((........)))).....)))))))))--))).. ( -29.90)
>DroAna_CAF1 118285 92 + 1
UU--CCUUCU----UUACCCCUCCAUCCCCCUUU-----AAAAGUGAUGGUGGGUGGGGGAGAAAAAAGAUUUC---AUUUCUUUUU------UUUUUUUUAAGAGGGCAAG
..--((((((----(....(((((((((.((.((-----(....))).)).)))))))))((((((((((....---...)))))))------))).....))))))).... ( -31.80)
>consensus
GUU_GCUUGUUU__UCUCCCCUUUUUGCACCAUUUUCGGAAACGGGAAAGUGGG_GGGAGAGCA_AAAGAUUUGAAAAUUUGUUUUCC____CUUUUUUUUGGGA__GUGUG
...............(((((((((((...((......)).....)))))).)))))((((((((................))))))))........................ ( -3.19 =  -6.63 +   3.44)

alignment

secondary structure

dotplot

Window 9

Location	17,398,720 – 17,398,819
Length	99
Sequences	5
Columns	112
Reading direction	reverse
Mean pairwise identity	67.07
Mean single sequence MFE	-19.03
Consensus MFE	-5.13
Energy contribution	-5.33
Covariance contribution	0.20
Combinations/Pair	1.50
Mean z-score	-2.80
Structure conservation index	0.27
SVM decision value	2.13
SVM RNA-class probability	0.988719
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17398720 99 - 22224390
CAUGC--UCCCAAAAAAAAG----GGAAAACAAAUUUCCAAAUCUUU-UGCUCUCCCUCCCACUUUUCCGUUUCCGAAAAUGGUGCAAAAAGGGGAGA------AAACAAAC
....(--((((.......((----(((...((((...........))-))...)))))....(((((((((((....))))))....)))))))))).------........ ( -21.20)
>DroSec_CAF1 113747 92 - 1
CACAC--UCCCAAAAAAAAG-----GAAAACAAAUUUCCAAAUCCUU-UGCUCUCC------------CGUUUCCGAAAAUGGUGCAAAAAGGGAAGAGAAAACAAACAAAC
.....--((((........(-----((((.....)))))......((-(((....(------------(((((....)))))).)))))..))))................. ( -18.40)
>DroEre_CAF1 115283 95 - 1
CACAC--UCCCAAAAAAAAG---CGGAAAACAAAUUUUCAAAUCUUU-UGCUCUACC-CCCAACUCCCUCUUUCCGAAAAUGGCGCAAAAAGGGGAGA--AAAC--------
....(--((((.........---..(((((....))))).....(((-(((.(((..-......................))).))))))..))))).--....-------- ( -15.46)
>DroYak_CAF1 107252 107 - 1
CACAC--UCCAAAAAAAAAAUAAAGAAAAACAACUUUUCAAAUCUUU-UGCUUCCCCUCCCACUUCCCCCUUUCCGAAAAUGGCGCAAAAAGGGGAGA--AAACAAGCGAAC
.....--.................(((((.....)))))......((-(((((...(((((.(((..(((...........)).)....)))))))).--....))))))). ( -16.20)
>DroAna_CAF1 118285 92 - 1
CUUGCCCUCUUAAAAAAAA------AAAAAGAAAU---GAAAUCUUUUUUCUCCCCCACCCACCAUCACUUUU-----AAAGGGGGAUGGAGGGGUAA----AGAAGG--AA
....((.((((.......(------(((((((...---....)))))))).((((((((((.((.........-----...))))).))).))))..)----))).))--.. ( -23.90)
>consensus
CACAC__UCCCAAAAAAAAG____GGAAAACAAAUUUCCAAAUCUUU_UGCUCUCCC_CCCACCUCCCCCUUUCCGAAAAUGGCGCAAAAAGGGGAGA__AAACAAAC_AAC
.......((((.............(((((.....)))))....((((.(((.((...........................)).))).))))))))................ ( -5.13 =  -5.33 +   0.20)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:26:26 2006