Locus 8559

Sequence ID 3R_DroMel_CAF1
Location 22,873,799 – 22,873,895
Length 96
Max. P 0.582809
window13752 window13753

overview

Window 2

Location 22,873,799 – 22,873,895
Length 96
Sequences 4
Columns 96
Reading direction forward
Mean pairwise identity 91.67
Mean single sequence MFE -19.52
Consensus MFE -15.36
Energy contribution -15.55
Covariance contribution 0.19
Combinations/Pair 1.12
Mean z-score -1.49
Structure conservation index 0.79
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22873799 96 + 27905053
GUAUAUGUUUCAUGUAGUAUGAAAUAUGCAACUGUGAGCCGAAAUUUGGUAACCUCACAUUAUGCACCAUACCCAUUUUUGGUUUCAAAAACAAAC
((((((((((((((...))))))))))(((..((((((((((...))))....))))))...)))...))))(((....))).............. ( -19.80)
>DroSec_CAF1 19600 96 + 1
GUAUAUGUUUUAAGUCGUAUGAAAUAUGCAACUGUGAGCCGAAAUUUGGUAACCUCACAUUAUGCACCAUACCCAUUUGGGGUUUCAAAAACAAAC
.....((((((........((((((.((((..((((((((((...))))....))))))...)))).....(((....)))))))))))))))... ( -21.50)
>DroSim_CAF1 19733 95 + 1
GUAUAUGUUUUAAGUCGUAUGAAAUAUGCAACUGUGAGCCAAAAUCUGGUAACCUCACAUUAUGCACCAUACCCAUUUU-GGUUUCAAAAACAAAC
.....((((((.....(((((.....((((..(((((((((.....)))....))))))...)))).)))))((.....-)).....))))))... ( -18.50)
>DroYak_CAF1 23101 93 + 1
GUAUAUGUUUCAAGUAGUGUGAAAUAUGCAACUGUGAGCCGAAAUUUGGUAACCUCGCAUUAUGCACCAUUCCCCUUA-UGGUUUCAAAAACAA--
....((((((((.......))))))))(((..((((((((((...))))....))))))...)))(((((.......)-))))...........-- ( -18.30)
>consensus
GUAUAUGUUUCAAGUAGUAUGAAAUAUGCAACUGUGAGCCGAAAUUUGGUAACCUCACAUUAUGCACCAUACCCAUUUUUGGUUUCAAAAACAAAC
.....((((((.....(((((.....((((..(((((((((.....)))....))))))...)))).)))))((......)).....))))))... (-15.36 = -15.55 +   0.19)

alignment

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secondary structure

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dotplot

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Window 3

Location 22,873,799 – 22,873,895
Length 96
Sequences 4
Columns 96
Reading direction reverse
Mean pairwise identity 91.67
Mean single sequence MFE -21.52
Consensus MFE -18.10
Energy contribution -18.60
Covariance contribution 0.50
Combinations/Pair 1.04
Mean z-score -1.47
Structure conservation index 0.84
SVM decision value 0.10
SVM RNA-class probability 0.582809
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22873799 96 - 27905053
GUUUGUUUUUGAAACCAAAAAUGGGUAUGGUGCAUAAUGUGAGGUUACCAAAUUUCGGCUCACAGUUGCAUAUUUCAUACUACAUGAAACAUAUAC
..(..((((((....))))))..)((((((((((...((((((....((.......))))))))..))))).((((((.....))))))))))).. ( -24.60)
>DroSec_CAF1 19600 96 - 1
GUUUGUUUUUGAAACCCCAAAUGGGUAUGGUGCAUAAUGUGAGGUUACCAAAUUUCGGCUCACAGUUGCAUAUUUCAUACGACUUAAAACAUAUAC
(((((((..((((((((.....))))...(((((...((((((....((.......))))))))..)))))..))))...)))...))))...... ( -22.20)
>DroSim_CAF1 19733 95 - 1
GUUUGUUUUUGAAACC-AAAAUGGGUAUGGUGCAUAAUGUGAGGUUACCAGAUUUUGGCUCACAGUUGCAUAUUUCAUACGACUUAAAACAUAUAC
...((((((.....((-.....))((((((((((...((((((....((((...))))))))))..)))))....))))).....))))))..... ( -22.30)
>DroYak_CAF1 23101 93 - 1
--UUGUUUUUGAAACCA-UAAGGGGAAUGGUGCAUAAUGCGAGGUUACCAAAUUUCGGCUCACAGUUGCAUAUUUCACACUACUUGAAACAUAUAC
--.((((((.....((.-...))((((((.((((...((.(((....((.......))))).))..)))))))))).........))))))..... ( -17.00)
>consensus
GUUUGUUUUUGAAACCAAAAAUGGGUAUGGUGCAUAAUGUGAGGUUACCAAAUUUCGGCUCACAGUUGCAUAUUUCAUACGACUUAAAACAUAUAC
...((((((.....((......))((((((((((...((((((....((.......))))))))..)))))....))))).....))))))..... (-18.10 = -18.60 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:14:05 2006