Locus 6873

Sequence ID 3R_DroMel_CAF1
Location 18,176,366 – 18,176,456
Length 90
Max. P 0.984363
window11158 window11159

overview

Window 8

Location 18,176,366 – 18,176,456
Length 90
Sequences 6
Columns 90
Reading direction forward
Mean pairwise identity 95.56
Mean single sequence MFE -24.07
Consensus MFE -20.95
Energy contribution -21.48
Covariance contribution 0.53
Combinations/Pair 1.04
Mean z-score -2.01
Structure conservation index 0.87
SVM decision value 1.37
SVM RNA-class probability 0.947174
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18176366 90 + 27905053
GAAACAAUUGCCUGACUUCUGGCCGAUUGCAGCCAUUGAGCCACAAAGGACUCAUUCUCCUGCACCUGCAUUUUAUGGCUGUCAACUGCA
....((((((((........)).))))))(((((((((((((.....)).))))......(((....)))....)))))))......... ( -24.70)
>DroSec_CAF1 204598 90 + 1
GAAACAAUUGCCUGACUUCUGGCCGAUUGCAGCCAUUGAGCCACAAAGGACUCAUUCUCCUGCACCUGCAUUUUAUGGCUGUCAACUGCA
....((((((((........)).))))))(((((((((((((.....)).))))......(((....)))....)))))))......... ( -24.70)
>DroSim_CAF1 212513 90 + 1
GAAACAAUUGCCUGACUUCUGGCCGAUUGCAGCCAUUGAGCCACAAAGGACUCAUUCUCCUGCACCUGCAUUUUAUGGCUGUCAACUGCA
....((((((((........)).))))))(((((((((((((.....)).))))......(((....)))....)))))))......... ( -24.70)
>DroEre_CAF1 220431 90 + 1
GAAACAAUUGCCUGACUUCUGGCCGAUUGCAGCCAUUGAGCCACAAAGGACUCAUUCUCCUGCACCUGCAUUUUAUGGCUGUCAACUGCA
....((((((((........)).))))))(((((((((((((.....)).))))......(((....)))....)))))))......... ( -24.70)
>DroYak_CAF1 215169 90 + 1
GAAACAAUUGCCUGACUUCUGGCCGAUUGCAGCCAUUGAGCCACAAAGGACUCAUUCUCCUGCACCUGCAUUUUAUGGCUGUCAACUGCA
....((((((((........)).))))))(((((((((((((.....)).))))......(((....)))....)))))))......... ( -24.70)
>DroAna_CAF1 198997 87 + 1
GAAACAAUUGCCUGACUCCUGCCCGAUUGCAGUCAUUCAGCCAGAAAAGACUC---CAAAUGCACCUGCAUUUUAUGGCUGUCAACUGCA
...........................((((((....((((((((......))---.((((((....))))))..))))))...)))))) ( -20.90)
>consensus
GAAACAAUUGCCUGACUUCUGGCCGAUUGCAGCCAUUGAGCCACAAAGGACUCAUUCUCCUGCACCUGCAUUUUAUGGCUGUCAACUGCA
....((((((((........)).))))))(((((((((((((.....)).))))......(((....)))....)))))))......... (-20.95 = -21.48 +   0.53)

alignment

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secondary structure

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dotplot

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Window 9

Location 18,176,366 – 18,176,456
Length 90
Sequences 6
Columns 90
Reading direction reverse
Mean pairwise identity 95.56
Mean single sequence MFE -29.43
Consensus MFE -26.23
Energy contribution -27.07
Covariance contribution 0.83
Combinations/Pair 1.00
Mean z-score -2.06
Structure conservation index 0.89
SVM decision value 1.97
SVM RNA-class probability 0.984363
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18176366 90 - 27905053
UGCAGUUGACAGCCAUAAAAUGCAGGUGCAGGAGAAUGAGUCCUUUGUGGCUCAAUGGCUGCAAUCGGCCAGAAGUCAGGCAAUUGUUUC
(((...(((((((((((((.(((....)))(((.......))))))))))))...((((((....))))))...)))).)))........ ( -29.80)
>DroSec_CAF1 204598 90 - 1
UGCAGUUGACAGCCAUAAAAUGCAGGUGCAGGAGAAUGAGUCCUUUGUGGCUCAAUGGCUGCAAUCGGCCAGAAGUCAGGCAAUUGUUUC
(((...(((((((((((((.(((....)))(((.......))))))))))))...((((((....))))))...)))).)))........ ( -29.80)
>DroSim_CAF1 212513 90 - 1
UGCAGUUGACAGCCAUAAAAUGCAGGUGCAGGAGAAUGAGUCCUUUGUGGCUCAAUGGCUGCAAUCGGCCAGAAGUCAGGCAAUUGUUUC
(((...(((((((((((((.(((....)))(((.......))))))))))))...((((((....))))))...)))).)))........ ( -29.80)
>DroEre_CAF1 220431 90 - 1
UGCAGUUGACAGCCAUAAAAUGCAGGUGCAGGAGAAUGAGUCCUUUGUGGCUCAAUGGCUGCAAUCGGCCAGAAGUCAGGCAAUUGUUUC
(((...(((((((((((((.(((....)))(((.......))))))))))))...((((((....))))))...)))).)))........ ( -29.80)
>DroYak_CAF1 215169 90 - 1
UGCAGUUGACAGCCAUAAAAUGCAGGUGCAGGAGAAUGAGUCCUUUGUGGCUCAAUGGCUGCAAUCGGCCAGAAGUCAGGCAAUUGUUUC
(((...(((((((((((((.(((....)))(((.......))))))))))))...((((((....))))))...)))).)))........ ( -29.80)
>DroAna_CAF1 198997 87 - 1
UGCAGUUGACAGCCAUAAAAUGCAGGUGCAUUUG---GAGUCUUUUCUGGCUGAAUGACUGCAAUCGGGCAGGAGUCAGGCAAUUGUUUC
.(((((((.(((((...((((((....))))))(---(((....))))))))).((..((((......))))..))....)))))))... ( -27.60)
>consensus
UGCAGUUGACAGCCAUAAAAUGCAGGUGCAGGAGAAUGAGUCCUUUGUGGCUCAAUGGCUGCAAUCGGCCAGAAGUCAGGCAAUUGUUUC
(((...(((((((((((((.(((....)))(((.......))))))))))))...((((((....))))))...)))).)))........ (-26.23 = -27.07 +   0.83)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:32:08 2006