Locus 6752

Sequence ID X_DroMel_CAF1
Location 16,770,729 – 16,770,866
Length 137
Max. P 0.821926
window11050 window11051 window11052

overview

Window 0

Location 16,770,729 – 16,770,832
Length 103
Sequences 3
Columns 103
Reading direction forward
Mean pairwise identity 98.06
Mean single sequence MFE -18.17
Consensus MFE -15.83
Energy contribution -15.83
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -2.56
Structure conservation index 0.87
SVM decision value 0.68
SVM RNA-class probability 0.821926
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16770729 103 + 22224390
AUUGGAUGCUUUAUCGAUUUAAAUGCAAAAAAGACAAGAUUGAAAAACAAGACGAAGAGCUCUAUCGAUAAAAUGAAAACUAGCAUAACUAUCGAUAGACAAA
.(((...(((((.(((.......(((......).))...(((.....)))..))))))))((((((((((..(((........)))...))))))))))))). ( -17.60)
>DroSec_CAF1 7742 103 + 1
AUUGGAUGCUUUAUCGAUUUAAAUGCAAAAAAGACAAGAUUGAAAAACAAGACGAAGAGGUCUAUCGAUAAAAUGAAAACUAGCAUAACUAUCGAUAGACAAA
.(((..(..(((.(((((((...(((......).))))))))).)))..)..)))....(((((((((((..(((........)))...)))))))))))... ( -19.40)
>DroSim_CAF1 7672 103 + 1
AUUGGAUGCUUUAUCGAUUUAAAUGCAAAAAAGACAAGAUUGAAAAACAAGACGAAAAGCUCUAUCGAUAAAAUGAUAACUAGCAUAACUAUCGAUAGACAAA
.(((...(((((.(((.......(((......).))...(((.....)))..))))))))((((((((((..(((........)))...))))))))))))). ( -17.50)
>consensus
AUUGGAUGCUUUAUCGAUUUAAAUGCAAAAAAGACAAGAUUGAAAAACAAGACGAAGAGCUCUAUCGAUAAAAUGAAAACUAGCAUAACUAUCGAUAGACAAA
.(((..(((((((......)))).))).................................((((((((((..(((........)))...))))))))))))). (-15.83 = -15.83 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 16,770,729 – 16,770,832
Length 103
Sequences 3
Columns 103
Reading direction reverse
Mean pairwise identity 98.06
Mean single sequence MFE -18.34
Consensus MFE -15.33
Energy contribution -15.67
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -2.20
Structure conservation index 0.84
SVM decision value 0.03
SVM RNA-class probability 0.546307
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16770729 103 - 22224390
UUUGUCUAUCGAUAGUUAUGCUAGUUUUCAUUUUAUCGAUAGAGCUCUUCGUCUUGUUUUUCAAUCUUGUCUUUUUUGCAUUUAAAUCGAUAAAGCAUCCAAU
....(((((((((((..(((........))).)))))))))))(((..(((..(((.....(((...........)))....)))..)))...)))....... ( -17.70)
>DroSec_CAF1 7742 103 - 1
UUUGUCUAUCGAUAGUUAUGCUAGUUUUCAUUUUAUCGAUAGACCUCUUCGUCUUGUUUUUCAAUCUUGUCUUUUUUGCAUUUAAAUCGAUAAAGCAUCCAAU
...((((((((((((..(((........))).))))))))))))......(..(((((.........(((.......)))........)))))..)....... ( -17.73)
>DroSim_CAF1 7672 103 - 1
UUUGUCUAUCGAUAGUUAUGCUAGUUAUCAUUUUAUCGAUAGAGCUUUUCGUCUUGUUUUUCAAUCUUGUCUUUUUUGCAUUUAAAUCGAUAAAGCAUCCAAU
....(((((((((((..(((........))).)))))))))))((((((((..(((.....(((...........)))....)))..))).)))))....... ( -19.60)
>consensus
UUUGUCUAUCGAUAGUUAUGCUAGUUUUCAUUUUAUCGAUAGAGCUCUUCGUCUUGUUUUUCAAUCUUGUCUUUUUUGCAUUUAAAUCGAUAAAGCAUCCAAU
....(((((((((((..(((........))).)))))))))))(((..(((..(((.....(((...........)))....)))..)))...)))....... (-15.33 = -15.67 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 16,770,764 – 16,770,866
Length 102
Sequences 4
Columns 103
Reading direction reverse
Mean pairwise identity 90.08
Mean single sequence MFE -22.48
Consensus MFE -17.14
Energy contribution -18.07
Covariance contribution 0.94
Combinations/Pair 1.09
Mean z-score -1.60
Structure conservation index 0.76
SVM decision value 0.13
SVM RNA-class probability 0.598053
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16770764 102 - 22224390
AUCGGCGCCGGUUGCUUAUCGAUCACGGUGCGUAUUUGUCUAUCGAUAGUUAUGCUAGUUUUCAUUUUAUCGAUAGAGCUCUUCGUCUUGUUU-UUCAAUCUU
....((((((((((.....))))..)))))).......(((((((((((..(((........))).)))))))))))................-......... ( -23.40)
>DroSec_CAF1 7777 102 - 1
AUCGGCACUGGUUGCUUAUCGAUCGCGGUGCGUAUUUGUCUAUCGAUAGUUAUGCUAGUUUUCAUUUUAUCGAUAGACCUCUUCGUCUUGUUU-UUCAAUCUU
....((((((((((.....)))))..)))))......((((((((((((..(((........))).))))))))))))...............-......... ( -24.20)
>DroSim_CAF1 7707 102 - 1
AUCGGCACUGGUUGCUUAUCGAUCGCGGUGCGUAUUUGUCUAUCGAUAGUUAUGCUAGUUAUCAUUUUAUCGAUAGAGCUUUUCGUCUUGUUU-UUCAAUCUU
....((((((((((.....)))))..))))).......(((((((((((..(((........))).)))))))))))................-......... ( -21.70)
>DroEre_CAF1 10456 103 - 1
AUCGGCGCUAGUUGUUUAUCGAUCACGGAGCGUAUUUGUCUAUCGAUAGGCAUGUUCGUUUUCUCUAUAUCAAUAGAACUCUUCGUCUUUUUUCUUCAAUCUU
...((((..((((((((((((((.(((((.....)))))..)))))))))))...........(((((....))))))))...))))................ ( -20.60)
>consensus
AUCGGCACUGGUUGCUUAUCGAUCACGGUGCGUAUUUGUCUAUCGAUAGUUAUGCUAGUUUUCAUUUUAUCGAUAGAGCUCUUCGUCUUGUUU_UUCAAUCUU
....((((((((((.....))))..)))))).......((((((((((...(((........)))..)))))))))).......................... (-17.14 = -18.07 +   0.94)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:22:01 2006