Locus 6054

Sequence ID 3L_DroMel_CAF1
Location 16,121,826 – 16,121,946
Length 120
Max. P 0.720077
window9697 window9698

overview

Window 7

Location 16,121,826 – 16,121,946
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 98.89
Mean single sequence MFE -32.03
Consensus MFE -32.25
Energy contribution -32.03
Covariance contribution -0.22
Combinations/Pair 1.03
Mean z-score -1.56
Structure conservation index 1.01
SVM decision value 0.40
SVM RNA-class probability 0.720077
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16121826 120 + 23771897
UGACGCGACAAUUUGUCUGUCUAUUUUUAACAAUAUCACCGCCGUCUGUCUAUCUGGCCGCCUUACUCUUUGGCGCGGUCGGAAAAUUGUGUCCGACAUUUCGGCUGAACAAAAUAACAU
.((((.(((.....)))))))..............(((..((((..((((.....((((((((........)).))))))(((........)))))))...)))))))............ ( -32.50)
>DroSec_CAF1 7549 120 + 1
UGACGCGACAAUUUGUCUGUCUAUUUUUAACAAUAUCACCGCCGUCUGUCUAUCUGGCCGCCUUACUCUUUGGCGCGGUCGGAAAAUUGUGUCCGACAUUUCGGUUGAACAAAAUAACAU
.((((.(((.....)))))))..............(((..((((..((((.....((((((((........)).))))))(((........)))))))...)))))))............ ( -31.10)
>DroSim_CAF1 6862 120 + 1
UGACGCGACAAUUUGUCUGUCUAUUUUUAACAAUAUCACCGCCGUCUGUCUAUCUGGCCGCCUUACUCUUUGGCGCGGUCGGAAAAUUGUGUCCGACAUUUCGGCUGAACAGAAUAACAU
.((((.(((.....)))))))..............(((..((((..((((.....((((((((........)).))))))(((........)))))))...)))))))............ ( -32.50)
>consensus
UGACGCGACAAUUUGUCUGUCUAUUUUUAACAAUAUCACCGCCGUCUGUCUAUCUGGCCGCCUUACUCUUUGGCGCGGUCGGAAAAUUGUGUCCGACAUUUCGGCUGAACAAAAUAACAU
.((((.(((.....)))))))..............(((..((((..((((.....((((((((........)).))))))(((........)))))))...)))))))............ (-32.25 = -32.03 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 16,121,826 – 16,121,946
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 98.89
Mean single sequence MFE -34.00
Consensus MFE -32.89
Energy contribution -32.67
Covariance contribution -0.22
Combinations/Pair 1.03
Mean z-score -1.61
Structure conservation index 0.97
SVM decision value 0.23
SVM RNA-class probability 0.643520
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16121826 120 - 23771897
AUGUUAUUUUGUUCAGCCGAAAUGUCGGACACAAUUUUCCGACCGCGCCAAAGAGUAAGGCGGCCAGAUAGACAGACGGCGGUGAUAUUGUUAAAAAUAGACAGACAAAUUGUCGCGUCA
.......((((((..(((.....((((((........))))))...(((.........))))))..))))))..((((.(((..((.(((((...........)))))))..))))))). ( -33.80)
>DroSec_CAF1 7549 120 - 1
AUGUUAUUUUGUUCAACCGAAAUGUCGGACACAAUUUUCCGACCGCGCCAAAGAGUAAGGCGGCCAGAUAGACAGACGGCGGUGAUAUUGUUAAAAAUAGACAGACAAAUUGUCGCGUCA
.((((..((((..(.........((((((........))))))...(((.........))))..))))..))))((((.(((..((.(((((...........)))))))..))))))). ( -31.80)
>DroSim_CAF1 6862 120 - 1
AUGUUAUUCUGUUCAGCCGAAAUGUCGGACACAAUUUUCCGACCGCGCCAAAGAGUAAGGCGGCCAGAUAGACAGACGGCGGUGAUAUUGUUAAAAAUAGACAGACAAAUUGUCGCGUCA
.......((((((..(((.....((((((........))))))...(((.........))))))..))))))..((((.(((..((.(((((...........)))))))..))))))). ( -36.40)
>consensus
AUGUUAUUUUGUUCAGCCGAAAUGUCGGACACAAUUUUCCGACCGCGCCAAAGAGUAAGGCGGCCAGAUAGACAGACGGCGGUGAUAUUGUUAAAAAUAGACAGACAAAUUGUCGCGUCA
.((((..((((..(.........((((((........))))))...(((.........))))..))))..))))((((.(((..((.(((((...........)))))))..))))))). (-32.89 = -32.67 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:08:23 2006