Locus 491

Sequence ID 3L_DroMel_CAF1
Location 1,381,463 – 1,381,563
Length 100
Max. P 0.999323
window731 window732

overview

Window 1

Location 1,381,463 – 1,381,563
Length 100
Sequences 6
Columns 101
Reading direction forward
Mean pairwise identity 88.96
Mean single sequence MFE -29.38
Consensus MFE -27.98
Energy contribution -27.37
Covariance contribution -0.61
Combinations/Pair 1.19
Mean z-score -1.32
Structure conservation index 0.95
SVM decision value 0.80
SVM RNA-class probability 0.854677
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1381463 100 + 23771897
UCCCAUAUUGUCUAGUGGUUAGGAUAUCCGGCUCUCACCCGGAAGGCCCGGGUUCAAUUCCCGGUAUGGGAAUAUGGUAAAGAAAUCUUCUUUUU-AGAAA
(((((((.(((((........))))).((((.....((((((.....)))))).......)))))))))))................((((....-)))). ( -28.30)
>DroSec_CAF1 37040 100 + 1
UCCCAUAUUGUCUAGUGGUUAGGAUAUCCGGCUCUCACCCGGAAGGCCCGGGUUCAAUUCCCGGUAUGGGAAUAUGGUGAAGAAAUCUUCUUUGU-AGAAA
(((((((.(((((........))))).((((.....((((((.....)))))).......))))))))))).((..(.((((....)))).)..)-).... ( -32.50)
>DroSim_CAF1 34465 100 + 1
UCCCAUAUUGUCUAGUGGUUAGGAUAUCCGGCUCUCACCCGGAAGGCCCGGGUUCAAUUCCCGGUAUGGGAAUAUGGUAAAGAAAUCUUCUUUUU-AGAAA
(((((((.(((((........))))).((((.....((((((.....)))))).......)))))))))))................((((....-)))). ( -28.30)
>DroEre_CAF1 38215 95 + 1
UCCCAUAUUGUCUAGUGGUUAGGAUAUCCGGCUCUCACCCGGAAGGCCCGGGUUCAAUUCCCGGUAUGGGAAAAUGGUGGAAAUGUUUCCUUUCU------
(((((((.(((((........))))).((((.....((((((.....)))))).......))))))))))).......((((....)))).....------ ( -29.80)
>DroWil_CAF1 15749 100 + 1
UCCCGUAUUGUCUAGUGGUUAGGAUAUCCGGCUCUCACCCGGAAGGCCCGGGUUCAAUUCCCGGUACGGGAAGAAGAUGAUGAACUUUUUUAUUCC-ACCA
(((((((.(((((........))))).((((.....((((((.....)))))).......)))))))))))(((((........))))).......-.... ( -29.00)
>DroYak_CAF1 39801 100 + 1
UCCCAUAUUGUCUAGUGGUUAGGAUAUCCGGCUCUCACCCGGAAGGCCCGGGUUCAAUUCCCGGUAUGGGAAAAUGGUGAAAGUGUUUUCUUUUU-AAAAA
(((((((.(((((........))))).((((.....((((((.....)))))).......))))))))))).......(((((......))))).-..... ( -28.40)
>consensus
UCCCAUAUUGUCUAGUGGUUAGGAUAUCCGGCUCUCACCCGGAAGGCCCGGGUUCAAUUCCCGGUAUGGGAAUAUGGUGAAGAAAUCUUCUUUUU_AGAAA
(((((((.(((((........))))).((((.....((((((.....)))))).......))))))))))).......((((....))))........... (-27.98 = -27.37 +  -0.61)

alignment

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secondary structure

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dotplot

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Window 2

Location 1,381,463 – 1,381,563
Length 100
Sequences 6
Columns 101
Reading direction reverse
Mean pairwise identity 88.96
Mean single sequence MFE -30.33
Consensus MFE -29.14
Energy contribution -28.58
Covariance contribution -0.55
Combinations/Pair 1.15
Mean z-score -2.57
Structure conservation index 0.96
SVM decision value 3.51
SVM RNA-class probability 0.999323
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1381463 100 - 23771897
UUUCU-AAAAAGAAGAUUUCUUUACCAUAUUCCCAUACCGGGAAUUGAACCCGGGCCUUCCGGGUGAGAGCCGGAUAUCCUAACCACUAGACAAUAUGGGA
.....-..(((((.....))))).......(((((((((((...((..((((((.....))))))..)).)))).....(((.....)))....))))))) ( -29.10)
>DroSec_CAF1 37040 100 - 1
UUUCU-ACAAAGAAGAUUUCUUCACCAUAUUCCCAUACCGGGAAUUGAACCCGGGCCUUCCGGGUGAGAGCCGGAUAUCCUAACCACUAGACAAUAUGGGA
.....-.....((((....)))).......(((((((((((...((..((((((.....))))))..)).)))).....(((.....)))....))))))) ( -31.40)
>DroSim_CAF1 34465 100 - 1
UUUCU-AAAAAGAAGAUUUCUUUACCAUAUUCCCAUACCGGGAAUUGAACCCGGGCCUUCCGGGUGAGAGCCGGAUAUCCUAACCACUAGACAAUAUGGGA
.....-..(((((.....))))).......(((((((((((...((..((((((.....))))))..)).)))).....(((.....)))....))))))) ( -29.10)
>DroEre_CAF1 38215 95 - 1
------AGAAAGGAAACAUUUCCACCAUUUUCCCAUACCGGGAAUUGAACCCGGGCCUUCCGGGUGAGAGCCGGAUAUCCUAACCACUAGACAAUAUGGGA
------.(((((....).))))........(((((((((((...((..((((((.....))))))..)).)))).....(((.....)))....))))))) ( -30.90)
>DroWil_CAF1 15749 100 - 1
UGGU-GGAAUAAAAAAGUUCAUCAUCUUCUUCCCGUACCGGGAAUUGAACCCGGGCCUUCCGGGUGAGAGCCGGAUAUCCUAACCACUAGACAAUACGGGA
((((-(((.........)))))))......(((((((((((...((..((((((.....))))))..)).)))).....(((.....)))....))))))) ( -32.90)
>DroYak_CAF1 39801 100 - 1
UUUUU-AAAAAGAAAACACUUUCACCAUUUUCCCAUACCGGGAAUUGAACCCGGGCCUUCCGGGUGAGAGCCGGAUAUCCUAACCACUAGACAAUAUGGGA
.....-.....((((....)))).......(((((((((((...((..((((((.....))))))..)).)))).....(((.....)))....))))))) ( -28.60)
>consensus
UUUCU_AAAAAGAAAAUUUCUUCACCAUAUUCCCAUACCGGGAAUUGAACCCGGGCCUUCCGGGUGAGAGCCGGAUAUCCUAACCACUAGACAAUAUGGGA
...........((((....)))).......(((((((((((...((..((((((.....))))))..)).)))).....(((.....)))....))))))) (-29.14 = -28.58 +  -0.55)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:43:21 2006