Locus 977

Sequence ID	X_DroMel_CAF1
Location	2,818,101 – 2,818,191
Length	90
Max. P	0.891865

overview

Window 9

Location	2,818,101 – 2,818,191
Length	90
Sequences	5
Columns	97
Reading direction	forward
Mean pairwise identity	76.22
Mean single sequence MFE	-17.90
Consensus MFE	-11.36
Energy contribution	-11.60
Covariance contribution	0.24
Combinations/Pair	1.07
Mean z-score	-1.70
Structure conservation index	0.63
SVM decision value	0.56
SVM RNA-class probability	0.781759
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2818101 90 + 22224390
AUAAUAUUUAGACAUAA---GUCCCAAAGAAACAAGGCAUACAUUUCUUCA----AUGCAAAAACAAGCUGCCUGAAAUGCAACGUAAUGCGUUGCA
..........(((....---)))...........(((((............----..((........)))))))....(((((((.....))))))) ( -15.93)
>DroSec_CAF1 206491 81 + 1
AGAAUAU---------G---GCCCCAAAGAGACCAGGCAUACAUUUCUUCA----UUGCAAAAACAAGCUGCCUUAAAUGCAACGUAAUGCGUUGCA
.......---------(---((....((((((...........))))))..----..((........)).))).....(((((((.....))))))) ( -14.80)
>DroSim_CAF1 178404 90 + 1
AGAAUAUAUGGACAUAA---GCCCCAAAGAGACCAGGCAUACAUUUCCUGG----UUGCAAAAACAAGCUGCCUCAAAUGCAACGUAAUGCGUUGCA
.........((.....(---((........(((((((.(.....).)))))----))..........))).)).....(((((((.....))))))) ( -21.97)
>DroEre_CAF1 225900 90 + 1
AGAAUCU--ACACGAAAAAAAUGCC-AACAAAUCAGGCAUACAUUUCUUCA----GUGCCGAAGAAAGCUGGCUGAAAUGCAAUGUAAUGCGUUGCA
.......--................-......((((.((....(((((((.----.....)))))))..)).))))..(((((((.....))))))) ( -21.50)
>DroYak_CAF1 213087 91 + 1
GGAAUUU--ACACGAAA---ACCCC-AACAAACCAGGCUUACAUUUUUUAAAAGAAAGCCAAAGAAAGCUGCCUAAAAUGCAACGUAAUGCGUUGCA
((..(((--......))---)..))-.........(((((...(((....)))..)))))..................(((((((.....))))))) ( -15.30)
>consensus
AGAAUAU__ACACAAAA___GCCCCAAAGAAACCAGGCAUACAUUUCUUCA____AUGCAAAAACAAGCUGCCUGAAAUGCAACGUAAUGCGUUGCA
..................................(((((..................((........)))))))....(((((((.....))))))) (-11.36 = -11.60 +   0.24)

alignment

secondary structure

dotplot

Window 0

Location	2,818,101 – 2,818,191
Length	90
Sequences	5
Columns	97
Reading direction	reverse
Mean pairwise identity	76.22
Mean single sequence MFE	-23.32
Consensus MFE	-12.12
Energy contribution	-13.20
Covariance contribution	1.08
Combinations/Pair	1.11
Mean z-score	-2.05
Structure conservation index	0.52
SVM decision value	0.97
SVM RNA-class probability	0.891865
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2818101 90 - 22224390
UGCAACGCAUUACGUUGCAUUUCAGGCAGCUUGUUUUUGCAU----UGAAGAAAUGUAUGCCUUGUUUCUUUGGGAC---UUAUGUCUAAAUAUUAU
(((((((.....)))))))....(((((((........)).(----..((((((((.......))))))))..)...---...)))))......... ( -22.10)
>DroSec_CAF1 206491 81 - 1
UGCAACGCAUUACGUUGCAUUUAAGGCAGCUUGUUUUUGCAA----UGAAGAAAUGUAUGCCUGGUCUCUUUGGGGC---C---------AUAUUCU
(((((((.....)))))))....(((((...(((((((....----...)))))))..)))))(((((.....))))---)---------....... ( -25.70)
>DroSim_CAF1 178404 90 - 1
UGCAACGCAUUACGUUGCAUUUGAGGCAGCUUGUUUUUGCAA----CCAGGAAAUGUAUGCCUGGUCUCUUUGGGGC---UUAUGUCCAUAUAUUCU
(((((((.....)))))))...(((((.((........))..----.((((.........)))))))))....((((---....))))......... ( -26.60)
>DroEre_CAF1 225900 90 - 1
UGCAACGCAUUACAUUGCAUUUCAGCCAGCUUUCUUCGGCAC----UGAAGAAAUGUAUGCCUGAUUUGUU-GGCAUUUUUUUCGUGU--AGAUUCU
((((..(((......)))......((((((..((...((((.----...(....)...)))).))...)))-)))..........)))--)...... ( -20.90)
>DroYak_CAF1 213087 91 - 1
UGCAACGCAUUACGUUGCAUUUUAGGCAGCUUUCUUUGGCUUUCUUUUAAAAAAUGUAAGCCUGGUUUGUU-GGGGU---UUUCGUGU--AAAUUCC
(((((((.....)))))))....(((.((((......)))).)))((((....(((.((((((.(.....)-.))))---)).))).)--))).... ( -21.30)
>consensus
UGCAACGCAUUACGUUGCAUUUCAGGCAGCUUGUUUUUGCAA____UGAAGAAAUGUAUGCCUGGUUUCUUUGGGGC___UUACGUCU__AUAUUCU
(((((((.....)))))))....(((((...((((((.............))))))..))))).................................. (-12.12 = -13.20 +   1.08)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:58:29 2006