Locus 7804

Sequence ID 3R_DroMel_CAF1
Location 20,918,360 – 20,918,456
Length 96
Max. P 0.771240
window12584 window12585

overview

Window 4

Location 20,918,360 – 20,918,456
Length 96
Sequences 4
Columns 100
Reading direction forward
Mean pairwise identity 89.77
Mean single sequence MFE -22.78
Consensus MFE -17.42
Energy contribution -17.54
Covariance contribution 0.12
Combinations/Pair 1.05
Mean z-score -1.54
Structure conservation index 0.76
SVM decision value 0.09
SVM RNA-class probability 0.579203
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20918360 96 + 27905053
ACGAUUUCAACAGCUCUUCGCGUUAAUGGC----ACAGAACACCACCUUUUCACUUGGCCUGGCCUUAACGGCCCAUCUUGGCCAUCUGUCGACUGCAAU
............((...(((((((((.(((----.(((..((.............))..)))))))))))((((......))))....).)))..))... ( -24.22)
>DroSec_CAF1 1692 100 + 1
ACGAUUUCAACAGCUCUUCGCGUUAAUGGUACACACAGAACACCACCUUUUCACUUGGCCUGGCCUUAACGGCCCAUCUUGGCCAUCUGUCGACUGCAAU
............((...(((......((((...........))))......((..(((((.((((.....))))......)))))..)).)))..))... ( -20.60)
>DroSim_CAF1 10104 100 + 1
ACGAUUUCAACAGCUCUUCGCGUUAAUGGCACACACAGAACACCACCUUUUCACUUGGCCUGGCCUUAACGGCCCAUCUUGGCCAUCUGUCGACUGCAAU
........(((.((.....)))))....(((..((((((................(((((.((((.....))))......)))))))))).)..)))... ( -20.79)
>DroEre_CAF1 9968 88 + 1
ACGAUUUCAACAGCUCUUCGCGUUAAUGGC----ACAG---AACACUUUUUCACUUGG-----CCUUAACGGCCGAUCUCGGCCAUCUGUCGACUCGAAU
.(((..((.((((........(((((.(((----.(((---((......)))...)))-----)))))))(((((....)))))..)))).)).)))... ( -25.50)
>consensus
ACGAUUUCAACAGCUCUUCGCGUUAAUGGC____ACAGAACACCACCUUUUCACUUGGCCUGGCCUUAACGGCCCAUCUUGGCCAUCUGUCGACUGCAAU
......((.((((........(((((.(((.....(((................))).....))))))))((((......))))..)))).))....... (-17.42 = -17.54 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 20,918,360 – 20,918,456
Length 96
Sequences 4
Columns 100
Reading direction reverse
Mean pairwise identity 89.77
Mean single sequence MFE -31.45
Consensus MFE -23.51
Energy contribution -24.70
Covariance contribution 1.19
Combinations/Pair 1.08
Mean z-score -2.00
Structure conservation index 0.75
SVM decision value 0.53
SVM RNA-class probability 0.771240
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20918360 96 - 27905053
AUUGCAGUCGACAGAUGGCCAAGAUGGGCCGUUAAGGCCAGGCCAAGUGAAAAGGUGGUGUUCUGU----GCCAUUAACGCGAAGAGCUGUUGAAAUCGU
.......(((((((..((((......))))(((((((((((((((..(....)..))))...))).----))).)))))........)))))))...... ( -33.10)
>DroSec_CAF1 1692 100 - 1
AUUGCAGUCGACAGAUGGCCAAGAUGGGCCGUUAAGGCCAGGCCAAGUGAAAAGGUGGUGUUCUGUGUGUACCAUUAACGCGAAGAGCUGUUGAAAUCGU
.......(((((((.(((((......((((.....)))).))))).(((....(((((((.........)))))))..)))......)))))))...... ( -31.00)
>DroSim_CAF1 10104 100 - 1
AUUGCAGUCGACAGAUGGCCAAGAUGGGCCGUUAAGGCCAGGCCAAGUGAAAAGGUGGUGUUCUGUGUGUGCCAUUAACGCGAAGAGCUGUUGAAAUCGU
.......(((((((.(((((......((((.....)))).))))).(((....(((((..(.......)..)))))..)))......)))))))...... ( -32.20)
>DroEre_CAF1 9968 88 - 1
AUUCGAGUCGACAGAUGGCCGAGAUCGGCCGUUAAGG-----CCAAGUGAAAAAGUGUU---CUGU----GCCAUUAACGCGAAGAGCUGUUGAAAUCGU
...(((.(((((((..(((((....)))))(((((((-----(((...(((......))---))).----))).)))))........)))))))..))). ( -29.50)
>consensus
AUUGCAGUCGACAGAUGGCCAAGAUGGGCCGUUAAGGCCAGGCCAAGUGAAAAGGUGGUGUUCUGU____GCCAUUAACGCGAAGAGCUGUUGAAAUCGU
.......(((((((.(((((......((((.....)))).))))).(((....(((((((.........)))))))..)))......)))))))...... (-23.51 = -24.70 +   1.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:55:07 2006