Locus 2921

Sequence ID X_DroMel_CAF1
Location 7,822,079 – 7,822,223
Length 144
Max. P 0.998256
window4783 window4784

overview

Window 3

Location 7,822,079 – 7,822,192
Length 113
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 74.50
Mean single sequence MFE -25.38
Consensus MFE -20.17
Energy contribution -19.07
Covariance contribution -1.10
Combinations/Pair 1.22
Mean z-score -2.03
Structure conservation index 0.79
SVM decision value 3.05
SVM RNA-class probability 0.998256
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7822079 113 + 22224390
G---CAGCAUGUAUGUUAAUUCUUCGCCAAAAAAAAA-AAAAAAAAACAUGAAGAAAGUUGUUUUCUUUUGUUUUCAACGCCUGUGUUGAU--GGGGGAAAACA-AUAAACAACCGCAAA
.---..((..((.((((..(((((((...........-...........))))))).(((((((((((..(...((((((....)))))))--..)))))))))-)).)))))).))... ( -24.05)
>DroSec_CAF1 23912 114 + 1
G---CAUCAUGUAUGUUAAUUCUUCGCCAAAAAAAAAAAAAAAAAAACAUGAAGAAAGUUGUUUUCUUUUGUUUUCAACGCCUGUGUUGAU--GGGGGAAAACA-AUAAACAACCGCAAA
(---(..............(((((((.......................))))))).(((((((((((..(...((((((....)))))))--..)))))))))-))........))... ( -23.00)
>DroAna_CAF1 24493 107 + 1
GAGAGAGCAUGUAUUCAAAUUCCUCGCCGAAGAA--------ACAGACGCGAUGAAAGUUGUUUUCUUUUGUGUUCGUC-----CGACGGCGGGAAGGAAAACAAAUCAAAACCCGCAAA
....((...(((.(((...((((.(((((..(..--------((..((((((.(((((...)))))..))))))..)).-----)..))))))))).))).)))..))............ ( -29.10)
>consensus
G___CAGCAUGUAUGUUAAUUCUUCGCCAAAAAAAAA_AAAAAAAAACAUGAAGAAAGUUGUUUUCUUUUGUUUUCAACGCCUGUGUUGAU__GGGGGAAAACA_AUAAACAACCGCAAA
.........(((.......(((((((.......................)))))))...(((((((((((....((((((....))))))...)))))))))))...........))).. (-20.17 = -19.07 +  -1.10)

alignment

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secondary structure

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dotplot

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Window 4

Location 7,822,115 – 7,822,223
Length 108
Sequences 3
Columns 111
Reading direction forward
Mean pairwise identity 79.39
Mean single sequence MFE -23.00
Consensus MFE -17.81
Energy contribution -16.60
Covariance contribution -1.21
Combinations/Pair 1.25
Mean z-score -1.32
Structure conservation index 0.77
SVM decision value 0.05
SVM RNA-class probability 0.560678
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7822115 108 + 22224390
AAAAAAACAUGAAGAAAGUUGUUUUCUUUUGUUUUCAACGCCUGUGUUGAU--GGGGGAAAACA-AUAAACAACCGCAAAAUGGUUUAUAAAUAACAGGCCCAAGGCAACU
.................(((((((((((..(...((((((....)))))))--..)))))))))-))....(((((.....)))))............(((...))).... ( -22.00)
>DroSec_CAF1 23949 108 + 1
AAAAAAACAUGAAGAAAGUUGUUUUCUUUUGUUUUCAACGCCUGUGUUGAU--GGGGGAAAACA-AUAAACAACCGCAAAAUGGUUUAUAAAUAACAGGCCCAAGGCAACU
.................(((((((((((..(...((((((....)))))))--..)))))))))-))....(((((.....)))))............(((...))).... ( -22.00)
>DroAna_CAF1 24527 101 + 1
--ACAGACGCGAUGAAAGUUGUUUUCUUUUGUGUUCGUC-----CGACGGCGGGAAGGAAAACAAAUCAAAACCCGCAAAAUGUUUUAUAAAUAAGAGGCCCAAGGC---C
--......(((.(((...((((((((((((.(((.((..-----...))))).)))))))))))).))).....)))....................((((...)))---) ( -25.00)
>consensus
AAAAAAACAUGAAGAAAGUUGUUUUCUUUUGUUUUCAACGCCUGUGUUGAU__GGGGGAAAACA_AUAAACAACCGCAAAAUGGUUUAUAAAUAACAGGCCCAAGGCAACU
...................(((((((((((....((((((....))))))...)))))))))))..................................(((...))).... (-17.81 = -16.60 +  -1.21)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:46:40 2006