Locus 4733

Sequence ID X_DroMel_CAF1
Location 12,303,942 – 12,304,057
Length 115
Max. P 0.999560
window7762 window7763

overview

Window 2

Location 12,303,942 – 12,304,057
Length 115
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 94.50
Mean single sequence MFE -30.42
Consensus MFE -29.12
Energy contribution -29.32
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -1.71
Structure conservation index 0.96
SVM decision value 2.58
SVM RNA-class probability 0.995494
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12303942 115 + 22224390
-GACAUCUUACCACA-ACUGUUGAAUGUACGGAUCUAUAU---GUUUAUAGUGUGCUAUUUGGCUGACCACAGGUGUGAAUGUGUUUGUGGUUUGUGUGCCGUGGUUUUUCUUGAUUUUG
-..((....(((((.-......(((((((((...(((((.---...)))))))))).))))(((.(((((((((..(....)..))))))))).....))))))))......))...... ( -30.70)
>DroSec_CAF1 6200 117 + 1
GGACUUCUUACCACAAACUGUUGAAUGUACGGAUCUAUAU---UUUUAUAGUGUGCUAUUUGGCUGACCACAGGUGUGAAUGUGUUUGUGGUUUGUGUGCCGUGGUUUUUCUUGAUUUUG
((((..(..(((((((((.((..((((((((...(((((.---...)))))))))).)))..))....(((....))).....)))))))))..).)).))................... ( -30.30)
>DroSim_CAF1 6725 116 + 1
-GACUGCUUACCACAAACUGUUGAAUGUACGGAUCUAUAU---UUUUAUAGUGUGCUAUUUGGCUGACCACAGGUGUGAAUGUGUUUGUGGUUUGUGUGCCGUGGUUUUUCUUGAUUUUG
-(((..(....((((....((..((((((((...(((((.---...)))))))))).)))..)).(((((((((..(....)..)))))))))))))....)..)))............. ( -30.40)
>DroEre_CAF1 6113 118 + 1
-GACUUCUCACCACA-ACUGUUGAAUGUAGGAAUCUAUAUUAUUUUUAUAGUGUGCUAUUUGGCUGACCACAGGUGUGAAUGUGUUUGUGGUUUGUGUGCCGUGGUUUUUCUUGAUUUUG
-........(((((.-(((((..(((((((....)))))))......))))).........(((.(((((((((..(....)..))))))))).....)))))))).............. ( -30.40)
>DroYak_CAF1 5582 118 + 1
-GACUUCUCACCACA-ACUGUUGAAUGUACGAGUCUAUAUUGUUUUUAUAGUGUGCUAUUUGGCUGACCACAGGUGUGAAUGUGUUUGUGGUUUGAGUGCCGUGGUUUUUCUUGAUUUUG
-........(((((.-(((((..((((((((...(((((.......)))))))))).)))..)).(((((((((..(....)..)))))))))..)))...))))).............. ( -30.30)
>consensus
_GACUUCUUACCACA_ACUGUUGAAUGUACGGAUCUAUAU___UUUUAUAGUGUGCUAUUUGGCUGACCACAGGUGUGAAUGUGUUUGUGGUUUGUGUGCCGUGGUUUUUCUUGAUUUUG
.........(((((........(((((((((...(((((.......)))))))))).))))(((.(((((((((..(....)..))))))))).....)))))))).............. (-29.12 = -29.32 +   0.20)

alignment

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secondary structure

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dotplot

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Window 3

Location 12,303,942 – 12,304,057
Length 115
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 94.50
Mean single sequence MFE -19.53
Consensus MFE -18.44
Energy contribution -18.44
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -2.15
Structure conservation index 0.94
SVM decision value 3.72
SVM RNA-class probability 0.999560
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12303942 115 - 22224390
CAAAAUCAAGAAAAACCACGGCACACAAACCACAAACACAUUCACACCUGUGGUCAGCCAAAUAGCACACUAUAAAC---AUAUAGAUCCGUACAUUCAACAGU-UGUGGUAAGAUGUC-
..............((((((((......((((((..............))))))..((......))...(((((...---.)))))................))-))))))........- ( -20.04)
>DroSec_CAF1 6200 117 - 1
CAAAAUCAAGAAAAACCACGGCACACAAACCACAAACACAUUCACACCUGUGGUCAGCCAAAUAGCACACUAUAAAA---AUAUAGAUCCGUACAUUCAACAGUUUGUGGUAAGAAGUCC
...................(((......(((((((((....((((....))))...((......))...(((((...---.)))))................))))))))).....))). ( -19.40)
>DroSim_CAF1 6725 116 - 1
CAAAAUCAAGAAAAACCACGGCACACAAACCACAAACACAUUCACACCUGUGGUCAGCCAAAUAGCACACUAUAAAA---AUAUAGAUCCGUACAUUCAACAGUUUGUGGUAAGCAGUC-
..............((((((((......((((((..............))))))..)))..........(((((...---.)))))....................)))))........- ( -18.74)
>DroEre_CAF1 6113 118 - 1
CAAAAUCAAGAAAAACCACGGCACACAAACCACAAACACAUUCACACCUGUGGUCAGCCAAAUAGCACACUAUAAAAAUAAUAUAGAUUCCUACAUUCAACAGU-UGUGGUGAGAAGUC-
..............((((((((......((((((..............))))))..((......))...(((((.......)))))................))-))))))........- ( -19.74)
>DroYak_CAF1 5582 118 - 1
CAAAAUCAAGAAAAACCACGGCACUCAAACCACAAACACAUUCACACCUGUGGUCAGCCAAAUAGCACACUAUAAAAACAAUAUAGACUCGUACAUUCAACAGU-UGUGGUGAGAAGUC-
..............((((((((......((((((..............))))))..((......))...(((((.......)))))................))-))))))........- ( -19.74)
>consensus
CAAAAUCAAGAAAAACCACGGCACACAAACCACAAACACAUUCACACCUGUGGUCAGCCAAAUAGCACACUAUAAAA___AUAUAGAUCCGUACAUUCAACAGU_UGUGGUAAGAAGUC_
..............((((((((......((((((..............))))))..)))..........(((((.......)))))....................)))))......... (-18.44 = -18.44 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:32:04 2006