Locus 3141

Sequence ID 3R_DroMel_CAF1
Location 8,292,850 – 8,292,970
Length 120
Max. P 0.786672
window5089

overview

Window 9

Location 8,292,850 – 8,292,970
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 91.50
Mean single sequence MFE -42.44
Consensus MFE -36.86
Energy contribution -36.03
Covariance contribution -0.83
Combinations/Pair 1.31
Mean z-score -1.68
Structure conservation index 0.87
SVM decision value 0.57
SVM RNA-class probability 0.786672
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 8292850 120 - 27905053
UAUAAGGGUGAGUCCAAGAGAUUUGCUCCCGAGGAGAUCAGUUCGAUGGUGCUGACCAAGAUGAAGGAGACGGCGGAGGCGUAUCUGGGCGAGAGCAUCACGGAUGCAGUCAUCACAGUU
......(((.((((((.(((.....((((...)))).....)))..))).))).)))..(((((.(....).((....))(((((((.((....))....)))))))..)))))...... ( -39.20)
>DroSec_CAF1 4403 120 - 1
UAUAAGGGUGAGUCCAAGCGAUUUGCCCCCGAGGAGAUCAGCUCAAUGGUGCUGGCCAAGAUGAAAGAGACGGCGGAGGCGUAUCUGGGCGAGAGCAUCACGGAUGCAGUCAUCACAGUU
.....(((..((((.....))))..)))(((..(((.....)))..))).(((((((..............)))(..((((((((((.((....))....))))))).)))..).)))). ( -39.24)
>DroSim_CAF1 4474 120 - 1
UAUAAGGGUGAGUCCAAGCGAUUUGCCCCCGAGGAGAUCAGCUCAAUGGUGCUGGCUAAGAUGAAGGAGACGGCGGAGGCGUAUCUGGGCGAGAGCAUCACGGAUGCAGUCAUCACAGUU
.....(((..((((.....))))..)))......((.(((((........)))))))..(((((.(....).((....))(((((((.((....))....)))))))..)))))...... ( -39.70)
>DroEre_CAF1 4480 120 - 1
UAUAAGGGCGAGUCCAAGAGAUUCGCCCCCGAGGAGAUCAGCUCAAUGGUGCUGGCCAAGAUGAAGGAGACGGCGGAGGCGUAUCUGGGCGAGAGCAUCACAGAUGCAGUCAUCACAGUU
.....(((((((((.....)))))))))(((..(((.....)))..))).(((((((....((..(....)..))..)))(((((((.((....))....)))))))........)))). ( -45.70)
>DroYak_CAF1 4416 120 - 1
UAUAAGGGCGAGUCGAAGAGAUUUGCCCCCGAGGAGAUCAGCUCAAUGGUGCUGGCCAAGAUGAAGGAGACGGCGGAAGCGUAUCUGGGCGAGAGCAUCACAGAUGCAGUCAUCACAGUU
.....(((((((((.....))))))))).......(..((((........))))..)..(((((.(....).((....))(((((((.((....))....)))))))..)))))...... ( -48.10)
>DroPer_CAF1 4877 120 - 1
UUCAAGGGCGAAGCGAAGCGCUUUUCCCCGGAGGAGAUCAGCUCGAUGGUGCUGGUCAAAAUGAAGGAGACGGCCGAGGCUUAUCUGGGCCAGACCAUCACAGACGCAGUCAUCACAGUG
(((..(((.((((((...)))))).)))..)))..(((..(((((...(((.(((((........(....)((((.(((....))).)))).))))).)))...)).))).)))...... ( -42.70)
>consensus
UAUAAGGGCGAGUCCAAGAGAUUUGCCCCCGAGGAGAUCAGCUCAAUGGUGCUGGCCAAGAUGAAGGAGACGGCGGAGGCGUAUCUGGGCGAGAGCAUCACAGAUGCAGUCAUCACAGUU
.....(((((((((.....)))))))))....((...(((((........)))))))..(((((........((....))(((((((.((....))....)))))))..)))))...... (-36.86 = -36.03 +  -0.83)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:54:02 2006