Locus 2542

Sequence ID 3L_DroMel_CAF1
Location 7,126,682 – 7,126,779
Length 97
Max. P 0.999126
window3948 window3949

overview

Window 8

Location 7,126,682 – 7,126,779
Length 97
Sequences 5
Columns 97
Reading direction forward
Mean pairwise identity 95.05
Mean single sequence MFE -29.89
Consensus MFE -26.49
Energy contribution -26.33
Covariance contribution -0.16
Combinations/Pair 1.10
Mean z-score -2.45
Structure conservation index 0.89
SVM decision value 3.39
SVM RNA-class probability 0.999126
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7126682 97 + 23771897
UGAUUCAGACGCAGCAAUGUUGCUGUUGUUGUUUUCUUUGGUGCCGUAAAACUAUAAACAAUUUUUGGCGGCUUCUCAGUCAACAGCAACGGCACGC
..........(((....)))(((((((((((((..((..((.(((((.(((............))).))))).))..))..)))))))))))))... ( -29.60)
>DroSec_CAF1 41434 97 + 1
UGAUUCAGACGCAGCAAUGUUGCUGUUGUUGUUUUCAUUGGUGCCGUAAAACUAUAAACAAUUUUUGGCGGCUUCUCAGUCAACAGCAACGGCACGC
..........(((....)))(((((((((((((...(((((.(((((.(((............))).)))))...))))).)))))))))))))... ( -28.20)
>DroSim_CAF1 42180 97 + 1
UGAUUCAGACGCAGCAAUGUUGCUGUUGUUGUUUUCAUUGGUGCCGUAAAACUAUAAACCAUUUUUGGCGGCUUCUCAGUCAACAGCAACGGCACGC
(((....(((((((((....))))).))))....)))...(((((((...........(((....))).((((....)))).......))))))).. ( -28.30)
>DroEre_CAF1 41564 96 + 1
UGAUUCAGACGCAGCAAUGUUGCUGUUGCUGUUUUCGUUGCUGCCGUAA-ACUAUAAACAAUUUUUGGCGGCUUCUCAGUCAACAGCAACGGCACGC
..........(((....)))(((((((((((((..(...(((((((...-...............)))))))......)..)))))))))))))... ( -32.37)
>DroYak_CAF1 43311 91 + 1
UGAUUCAGACGCAGCAAUGUUGCUGUUGCUGUU-----UGAUGCCGUAA-ACUAUAAACAAUUUUUGGCGGCUUCUCAGUCAACAGCAACGGCACGC
.............((...(((((((((((((..-----.((.(((((..-...((.....)).....))))).)).))).)))))))))).)).... ( -31.00)
>consensus
UGAUUCAGACGCAGCAAUGUUGCUGUUGUUGUUUUCAUUGGUGCCGUAAAACUAUAAACAAUUUUUGGCGGCUUCUCAGUCAACAGCAACGGCACGC
....................(((((((((((((......((.(((((....................))))).))......)))))))))))))... (-26.49 = -26.33 +  -0.16)

alignment

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secondary structure

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dotplot

Postscript

Window 9

Location 7,126,682 – 7,126,779
Length 97
Sequences 5
Columns 97
Reading direction reverse
Mean pairwise identity 95.05
Mean single sequence MFE -27.92
Consensus MFE -23.64
Energy contribution -24.24
Covariance contribution 0.60
Combinations/Pair 1.00
Mean z-score -2.17
Structure conservation index 0.85
SVM decision value 2.12
SVM RNA-class probability 0.988379
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7126682 97 - 23771897
GCGUGCCGUUGCUGUUGACUGAGAAGCCGCCAAAAAUUGUUUAUAGUUUUACGGCACCAAAGAAAACAACAACAGCAACAUUGCUGCGUCUGAAUCA
(((.((.((((((((((........((((...(((((((....))))))).))))......(....)..))))))))))...))))).......... ( -25.90)
>DroSec_CAF1 41434 97 - 1
GCGUGCCGUUGCUGUUGACUGAGAAGCCGCCAAAAAUUGUUUAUAGUUUUACGGCACCAAUGAAAACAACAACAGCAACAUUGCUGCGUCUGAAUCA
(((.((.((((((((((........((((...(((((((....))))))).)))).....((....)).))))))))))...))))).......... ( -26.70)
>DroSim_CAF1 42180 97 - 1
GCGUGCCGUUGCUGUUGACUGAGAAGCCGCCAAAAAUGGUUUAUAGUUUUACGGCACCAAUGAAAACAACAACAGCAACAUUGCUGCGUCUGAAUCA
(((.((.((((((((((......((((((.......))))))...(((((.((.......)))))))..))))))))))...))))).......... ( -25.80)
>DroEre_CAF1 41564 96 - 1
GCGUGCCGUUGCUGUUGACUGAGAAGCCGCCAAAAAUUGUUUAUAGU-UUACGGCAGCAACGAAAACAGCAACAGCAACAUUGCUGCGUCUGAAUCA
(((.((.((((((((((.(((.(..((.(((..((((((....))))-))..))).))..).....)))))))))))))...))))).......... ( -30.70)
>DroYak_CAF1 43311 91 - 1
GCGUGCCGUUGCUGUUGACUGAGAAGCCGCCAAAAAUUGUUUAUAGU-UUACGGCAUCA-----AACAGCAACAGCAACAUUGCUGCGUCUGAAUCA
(((.((.((((((((((.(((.((.((((....((((((....))))-)).)))).)).-----..)))))))))))))...))))).......... ( -30.50)
>consensus
GCGUGCCGUUGCUGUUGACUGAGAAGCCGCCAAAAAUUGUUUAUAGUUUUACGGCACCAAUGAAAACAACAACAGCAACAUUGCUGCGUCUGAAUCA
(((.((.((((((((((.((....))..(((.(((((((....)))))))..)))..............))))))))))...))))).......... (-23.64 = -24.24 +   0.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:35:17 2006