Locus 6188

Sequence ID 3R_DroMel_CAF1
Location 16,184,299 – 16,184,485
Length 186
Max. P 0.932156
window10083 window10084

overview

Window 3

Location 16,184,299 – 16,184,405
Length 106
Sequences 5
Columns 115
Reading direction forward
Mean pairwise identity 83.17
Mean single sequence MFE -28.50
Consensus MFE -17.10
Energy contribution -17.94
Covariance contribution 0.84
Combinations/Pair 1.06
Mean z-score -2.36
Structure conservation index 0.60
SVM decision value 0.68
SVM RNA-class probability 0.820185
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16184299 106 + 27905053
GCCCAUUUAAUAAGGGAGGGCGAUGCCUGCUGCCCCAGGCAUUGCCCCGAGUCGAUUCAAAAAGACUCCCAACCCAAACCC------AAGCCCAUA---AACCCAAUCCCGCAUC
.............((((((((((((((((......)))))))))))).(((((..........))))).............------.........---.......))))..... ( -35.90)
>DroSec_CAF1 13478 103 + 1
GCUCAUUUAAUAAGGGAGCGCCAUGCCUGGGG---CAGCCAUUGCCCCGAGUCGAUUCCAACUGACUCCCAACCCAAGCCC------AAACCCAUA---AACUCAACCCCGCAUC
((((.((....))..))))...((((..((((---(((...)))))))((((((........)))))).............------.........---...........)))). ( -25.50)
>DroSim_CAF1 7046 103 + 1
GCCCAUUUAAUAAGGGAGCGCGAUGCCUGGGG---CAGCCAUUGCCCCGGGUCGAUUCCAACUGACUCCCAACCCAAACUC------AAACCCAUA---AACCCAACCCCGCAUC
.............(((((((.((.((((((((---(((...)))))))))))....))....)).)))))...........------.........---................ ( -27.50)
>DroEre_CAF1 12808 112 + 1
GCCCAUUUAAUAAGGGAGCGGGCUGCCUGGGG---CAGCCAUUGCCCAUAGUCGAUUCAAAGUGACUCCCAGCCCAGACACAAUCUCAAACCCAUACCCAACCCAACCCCGCAUC
.(((.........))).((((((((....(((---(((...))))))..(((((........)))))..))))))(((.....)))........................))... ( -27.70)
>DroYak_CAF1 14531 111 + 1
GCCCAUUUAAUAAGGGAGCGCGAUGCCUGGGG---CAGCCAUUGCCCAGAGUCGAUUCAAAGUGACUCCCAACCCAAACACAAUAUCAACCCCAAACCCAAUUCG-UCCCGCAUC
.(((.........))).(((.((((..(((((---(((...)))))).((((((........))))))..............................))...))-)).)))... ( -25.90)
>consensus
GCCCAUUUAAUAAGGGAGCGCGAUGCCUGGGG___CAGCCAUUGCCCCGAGUCGAUUCAAACUGACUCCCAACCCAAACAC______AAACCCAUA___AACCCAACCCCGCAUC
.............(((...((((((.(((......))).))))))...((((((........))))))....)))........................................ (-17.10 = -17.94 +   0.84)

alignment

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secondary structure

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dotplot

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Window 4

Location 16,184,374 – 16,184,485
Length 111
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 88.75
Mean single sequence MFE -36.78
Consensus MFE -32.32
Energy contribution -32.16
Covariance contribution -0.16
Combinations/Pair 1.14
Mean z-score -1.71
Structure conservation index 0.88
SVM decision value 1.22
SVM RNA-class probability 0.932156
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16184374 111 - 27905053
CCAAUCAAUUCAAUUUGCGACUUGUUUGCGCCCGGCAUCGUUCGAAUUUCAGCUUCAUUUUUGGCUGGGGUCUGGAAUUGGAUGCGGGAUUGGGUU---UAUGGGCUU------GGGUUU
(((...((((((((..((((.....)))).((((.((((.((((.((..(((((........)))))..)).))))....))))))))))))))))---..)))....------...... ( -34.10)
>DroSec_CAF1 13550 111 - 1
CCAAUCAAUUCAAUUUGCGACUUGUUUGCGCCCGGCAUCGUUCGCAUUUCAGCUUCAUUUUUGGCUGGGGUCUGGAAUUGGAUGCGGGGUUGAGUU---UAUGGGUUU------GGGCUU
(((...((((((....((((.....))))((((.(((((.((((.((..(((((........)))))..)).))))....))))).))))))))))---..)))....------...... ( -37.50)
>DroSim_CAF1 7118 111 - 1
CCAAUCAAUUCAAUUUGCGACUUGUUUGCGCCCGGCAUCGUUCGCAUUUCAGCUUCAUUUUUGGCUGGGGUCUGGAAUUGGAUGCGGGGUUGGGUU---UAUGGGUUU------GAGUUU
......((((((......((((..(..((((((.(((((.((((.((..(((((........)))))..)).))))....))))).))))...)).---.)..)))))------))))). ( -36.60)
>DroEre_CAF1 12880 120 - 1
CCAAUCAAUUCAAUUUGCGACUUGUUUGCGCCCGGCAUCGUUCGCAUUUCAGCUUCAUUUUUGGCUGGGGCUCGAAAUUGGAUGCGGGGUUGGGUUGGGUAUGGGUUUGAGAUUGUGUCU
(((.((((((((....((((.....))))((((.(((((.((((..(..(((((........)))))..)..))))....))))).))))))))))))...)))................ ( -40.90)
>DroYak_CAF1 14603 119 - 1
CCAAUCAAUUCAAUUUGCGACUUGUUUGCGCCCGGCAUCGUUCGCAUUUCAGCUUCAUUUUUGGCUGGGCUUUGGAAUUGGAUGCGGGA-CGAAUUGGGUUUGGGGUUGAUAUUGUGUUU
(((((((((((.....((((.....))))(((((.((((((((.((.(((((((........)))))))...))))))..)))))))).-))))))))..))))................ ( -34.80)
>consensus
CCAAUCAAUUCAAUUUGCGACUUGUUUGCGCCCGGCAUCGUUCGCAUUUCAGCUUCAUUUUUGGCUGGGGUCUGGAAUUGGAUGCGGGGUUGGGUU___UAUGGGUUU______GGGUUU
(((...((((((((..((((.....)))).((((.((((.((((.(((((((((........))))))))).))))....)))))))))))))))).....)))................ (-32.32 = -32.16 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:14:54 2006