Locus 9041

Sequence ID 3R_DroMel_CAF1
Location 24,190,187 – 24,190,307
Length 120
Max. P 0.975691
window14479 window14480

overview

Window 9

Location 24,190,187 – 24,190,307
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 99.00
Mean single sequence MFE -23.37
Consensus MFE -22.99
Energy contribution -22.85
Covariance contribution -0.14
Combinations/Pair 1.03
Mean z-score -0.89
Structure conservation index 0.98
SVM decision value 0.75
SVM RNA-class probability 0.841508
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24190187 120 + 27905053
AAUGAAAAUCUUUUAUUCAUGAGGCUAUAAAAUUGCCCAAUUUUCAGGCCAUUAGCAAAAUUUACGCCUUUUUCUCUGCACGCAGCGCAUAGUGGCCAUUAAACACAGUCGCCUGCAUAA
..................(((((((...((((((....))))))..((((((((((((((........))))...(((....))).)).)))))))).............)))).))).. ( -23.30)
>DroPse_CAF1 13493 120 + 1
AAUGAAAAUCUUUUAUUCAUGAGGCUAUAAAAUUGCCCAAUUUUCAGGCCAUUAGCAAAAUUUACGCCUUUUUCUCUGCACGCAGCGCAUAGUGGCCAUUAAGCACAGUCGCCUGCAUAA
..(((((((..........((.(((.........))))))))))))((((((((((((((........))))...(((....))).)).)))))))).....(((........))).... ( -24.10)
>DroSec_CAF1 13083 120 + 1
AAUGAAAAUCUUUUAUUCAUGAGGCUAUAAAAUUGCCCAAUUUUCAGGCCAUUAGCAAAAUUUACGCCUUUUUCUCUGCACGCAGCGCAUAGUGGCCAUUAAACACAGUCGCUUGCAUAA
..(((((((..........((.(((.........))))))))))))((((((((((((((........))))...(((....))).)).))))))))....................... ( -22.10)
>DroYak_CAF1 13911 120 + 1
AAUGAAAAUCUUUUAUUCAUGAGGCUAUAAAAUUGCCCAAUUUUCAGGCCAUUAGCAAAAUUUACGCCUUUUUCUCUGCACGCAGCGCAUAGUGGCCAUUAAACACAGUCGCCUGCAUAA
..................(((((((...((((((....))))))..((((((((((((((........))))...(((....))).)).)))))))).............)))).))).. ( -23.30)
>DroAna_CAF1 11513 120 + 1
AAUGAAAAUCUUUUAUUCAUGAGGCUAUAAAAUUGCCCAAUUUUCAGGCCAUUAGCAAAAUUUACGCCUUUUUCUCUGCACGCAGCGCAUAGUGGCCAUUAAAUACAGUCGCCUGCAUAA
..................(((((((...((((((....))))))..((((((((((((((........))))...(((....))).)).)))))))).............)))).))).. ( -23.30)
>DroPer_CAF1 13390 120 + 1
AAUGAAAAUCUUUUAUUCAUGAGGCUAUAAAAUUGCCCAAUUUUCAGGCCAUUAGCAAAAUUUACGCCUUUUUCUCUGCACGCAGCGCAUAGUGGCCAUUAAGCACAGUCGCCUGCAUAA
..(((((((..........((.(((.........))))))))))))((((((((((((((........))))...(((....))).)).)))))))).....(((........))).... ( -24.10)
>consensus
AAUGAAAAUCUUUUAUUCAUGAGGCUAUAAAAUUGCCCAAUUUUCAGGCCAUUAGCAAAAUUUACGCCUUUUUCUCUGCACGCAGCGCAUAGUGGCCAUUAAACACAGUCGCCUGCAUAA
..................(((((((...((((((....))))))..((((((((((((((........))))...(((....))).)).)))))))).............)))).))).. (-22.99 = -22.85 +  -0.14)

alignment

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secondary structure

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dotplot

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Window 0

Location 24,190,187 – 24,190,307
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 99.00
Mean single sequence MFE -30.92
Consensus MFE -29.67
Energy contribution -29.79
Covariance contribution 0.11
Combinations/Pair 1.03
Mean z-score -1.38
Structure conservation index 0.96
SVM decision value 1.75
SVM RNA-class probability 0.975691
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24190187 120 - 27905053
UUAUGCAGGCGACUGUGUUUAAUGGCCACUAUGCGCUGCGUGCAGAGAAAAAGGCGUAAAUUUUGCUAAUGGCCUGAAAAUUGGGCAAUUUUAUAGCCUCAUGAAUAAAAGAUUUUCAUU
..((((((....)))))).....(((((((.(((((...))))).)).....((((.......))))..)))))((((((((((((.........))))...........)))))))).. ( -30.90)
>DroPse_CAF1 13493 120 - 1
UUAUGCAGGCGACUGUGCUUAAUGGCCACUAUGCGCUGCGUGCAGAGAAAAAGGCGUAAAUUUUGCUAAUGGCCUGAAAAUUGGGCAAUUUUAUAGCCUCAUGAAUAAAAGAUUUUCAUU
(((((.((((.....(((((((((((((((.(((((...))))).)).....((((.......))))..))))).....))))))))........)))))))))................ ( -33.12)
>DroSec_CAF1 13083 120 - 1
UUAUGCAAGCGACUGUGUUUAAUGGCCACUAUGCGCUGCGUGCAGAGAAAAAGGCGUAAAUUUUGCUAAUGGCCUGAAAAUUGGGCAAUUUUAUAGCCUCAUGAAUAAAAGAUUUUCAUU
..(((((......))))).....(((((((.(((((...))))).)).....((((.......))))..)))))((((((((((((.........))))...........)))))))).. ( -25.60)
>DroYak_CAF1 13911 120 - 1
UUAUGCAGGCGACUGUGUUUAAUGGCCACUAUGCGCUGCGUGCAGAGAAAAAGGCGUAAAUUUUGCUAAUGGCCUGAAAAUUGGGCAAUUUUAUAGCCUCAUGAAUAAAAGAUUUUCAUU
..((((((....)))))).....(((((((.(((((...))))).)).....((((.......))))..)))))((((((((((((.........))))...........)))))))).. ( -30.90)
>DroAna_CAF1 11513 120 - 1
UUAUGCAGGCGACUGUAUUUAAUGGCCACUAUGCGCUGCGUGCAGAGAAAAAGGCGUAAAUUUUGCUAAUGGCCUGAAAAUUGGGCAAUUUUAUAGCCUCAUGAAUAAAAGAUUUUCAUU
..((((((....)))))).....(((((((.(((((...))))).)).....((((.......))))..)))))((((((((((((.........))))...........)))))))).. ( -31.90)
>DroPer_CAF1 13390 120 - 1
UUAUGCAGGCGACUGUGCUUAAUGGCCACUAUGCGCUGCGUGCAGAGAAAAAGGCGUAAAUUUUGCUAAUGGCCUGAAAAUUGGGCAAUUUUAUAGCCUCAUGAAUAAAAGAUUUUCAUU
(((((.((((.....(((((((((((((((.(((((...))))).)).....((((.......))))..))))).....))))))))........)))))))))................ ( -33.12)
>consensus
UUAUGCAGGCGACUGUGUUUAAUGGCCACUAUGCGCUGCGUGCAGAGAAAAAGGCGUAAAUUUUGCUAAUGGCCUGAAAAUUGGGCAAUUUUAUAGCCUCAUGAAUAAAAGAUUUUCAUU
(((((.((((.....(((((((((((((((.(((((...))))).)).....((((.......))))..))))).....))))))))........)))))))))................ (-29.67 = -29.79 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:25:21 2006