Locus 1004

Sequence ID X_DroMel_CAF1
Location 2,907,053 – 2,907,147
Length 94
Max. P 0.669086
window1626

overview

Window 6

Location 2,907,053 – 2,907,147
Length 94
Sequences 6
Columns 107
Reading direction reverse
Mean pairwise identity 80.94
Mean single sequence MFE -27.45
Consensus MFE -20.20
Energy contribution -20.65
Covariance contribution 0.45
Combinations/Pair 1.20
Mean z-score -1.41
Structure conservation index 0.74
SVM decision value 0.29
SVM RNA-class probability 0.669086
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2907053 94 - 22224390
AAAAUCG----------GUGAAAAAGCGGGCGGGGCCGGCC-GGCAAUUUAUGGCCCAGCGGAAGGUGAAUUCAAUUUCUGUUGCA--GGCCUAACGAAAGUUUUGA
.......----------.....(((((...(((((((((((-(........)))))(((((((((.((....)).)))))))))..--)))))..))...))))).. ( -32.10)
>DroSec_CAF1 293676 94 - 1
AAAAUCG----------GAGGAAAAGCGGGCGGGGCCGGCC-GGCAAUUUAUGGCCCAGCGGAAGGUGAAUUCAAUUUCUGUUGCA--GGCCUAACGAAAGUUUUGA
.......----------.....(((((...(((((((((((-(........)))))(((((((((.((....)).)))))))))..--)))))..))...))))).. ( -32.10)
>DroSim_CAF1 262815 94 - 1
AAAAUCG----------GAGGAAAAGCGGGCGGGGCCGGCC-GGCAAUUUAUGGCCCAGCGGAAGGUGAAUUCAAUUUCUGUUGCA--GGCCUAACGAAAGUUUUGA
.......----------.....(((((...(((((((((((-(........)))))(((((((((.((....)).)))))))))..--)))))..))...))))).. ( -32.10)
>DroEre_CAF1 317733 104 - 1
AAAAUCGGUGAAAAGCGGGGGAAAAGCGGGCGAGGCCAGUC-GGCAAUUUAUGGCCCAUCGGAAGGUGAAUUCAAUUUCUGUUGCA--GGCCUAACGAAAGUUUUGA
......(((.....((((.(((((...((((.(.(((....-)))......).))))(((....)))........))))).)))).--.))).(((....))).... ( -28.80)
>DroYak_CAF1 302213 93 - 1
AAAAUCG-----------GGGAAAAGCGGGCGGGGCCGGUC-GGCAAUUUAUGGCCCAUCGGAAGGUGAAUUCAAUUUCUGUUGCA--AGCCUAACGAAAGUUUUGA
.......-----------....(((((((((.(.(((....-)))......).)))).(((..((((.....((((....))))..--.))))..)))..))))).. ( -25.50)
>DroPer_CAF1 421648 80 - 1
-------------------------GC-GGCGAAGAAAAUUGUUCAAUUUAUGGCCUAACAGAAGGUAAAUUCAAUUUUCCUUACACUGGCCU-ACGGAAGUUUUGA
-------------------------..-.((((......))))((((.....((((......((((.(((......))))))).....)))).-((....)).)))) ( -14.10)
>consensus
AAAAUCG__________GAGGAAAAGCGGGCGGGGCCGGCC_GGCAAUUUAUGGCCCAGCGGAAGGUGAAUUCAAUUUCUGUUGCA__GGCCUAACGAAAGUUUUGA
......................(((((...((..(((.....))).......(((((((((((((.((....)).)))))))))....))))...))...))))).. (-20.20 = -20.65 +   0.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:59:09 2006