Locus 4554

Sequence ID 3R_DroMel_CAF1
Location 12,058,536 – 12,058,696
Length 160
Max. P 0.987542
window7436 window7437

overview

Window 6

Location 12,058,536 – 12,058,656
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 96.11
Mean single sequence MFE -44.03
Consensus MFE -42.34
Energy contribution -42.23
Covariance contribution -0.11
Combinations/Pair 1.05
Mean z-score -1.78
Structure conservation index 0.96
SVM decision value 0.53
SVM RNA-class probability 0.770869
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12058536 120 - 27905053
UUUUGCUCCAGCAGCGCUGCCGGCGUCAGCGUCGCAGCUGCAGCGCUGCAAUCGGUUCGCUGUUCCUUUUACGCUUAUUAGUUUAAUUUGCCGCUGCCAGGGAUUGUGGAUGCUCCAAAC
....(((((((((((((((((((((....))))).....))))))))))....(((..((.((.....(((.(((....))).)))...)).)).)))........)))).))....... ( -42.10)
>DroSim_CAF1 39906 120 - 1
UUUUGCUCCAGCAGCGCUGCCGGCGUCAGCGUCGCAGUUGCAGCGCUGCAAUCGGUUCGCUGUUCCUUUUACGCUUAUUAGUUUAAUUUGCCGCUGCCAGGGAUUGUGGAUGCUGCAAGC
.(((((..(.(((((((((((((((....))))).....)))))))))).....((((((.((((((.....((..((((...))))..)).......)))))).)))))))..))))). ( -44.70)
>DroYak_CAF1 30123 120 - 1
UUUUGCUCCAGCAGCGCUGCCGGCGUCGACGUUGCAGUGGCAGCGCUGCAAUCGGUUCGCUGUUCCUUUUACGCUUAUUAGUUUAAUUUGCCGCUGCCAGGGAUUGUGGAUGCUGCAAAC
.(((((..(.(((((((((((.(((.......)))...))))))))))).....((((((.((((((.....((..((((...))))..)).......)))))).)))))))..))))). ( -45.30)
>consensus
UUUUGCUCCAGCAGCGCUGCCGGCGUCAGCGUCGCAGUUGCAGCGCUGCAAUCGGUUCGCUGUUCCUUUUACGCUUAUUAGUUUAAUUUGCCGCUGCCAGGGAUUGUGGAUGCUGCAAAC
.(((((....(((((((((((((((....))))).....)))))))))).....((((((.((((((.....((..((((...))))..)).......)))))).))))))...))))). (-42.34 = -42.23 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 12,058,576 – 12,058,696
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 97.22
Mean single sequence MFE -47.12
Consensus MFE -46.47
Energy contribution -46.25
Covariance contribution -0.22
Combinations/Pair 1.03
Mean z-score -2.83
Structure conservation index 0.99
SVM decision value 2.08
SVM RNA-class probability 0.987542
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12058576 120 - 27905053
UUGCCGAUUGGGGUUAUAAUGGAUUUCGACAGUCCAAGAGUUUUGCUCCAGCAGCGCUGCCGGCGUCAGCGUCGCAGCUGCAGCGCUGCAAUCGGUUCGCUGUUCCUUUUACGCUUAUUA
..((((((((((((.....((((((.....))))))........))))).(((((((((((((((....))))).....)))))))))))))))))..((.((.......))))...... ( -47.02)
>DroSim_CAF1 39946 120 - 1
UUGCCGAUUGGGGUUAUAAUGGAUUUCGACAGUCCAAGAGUUUUGCUCCAGCAGCGCUGCCGGCGUCAGCGUCGCAGUUGCAGCGCUGCAAUCGGUUCGCUGUUCCUUUUACGCUUAUUA
..((((((((((((.....((((((.....))))))........))))).(((((((((((((((....))))).....)))))))))))))))))..((.((.......))))...... ( -47.02)
>DroYak_CAF1 30163 120 - 1
UUGCCGAUUGGGGUUAUAAUGGAUUUCGACAGUCCAAGAGUUUUGCUCCAGCAGCGCUGCCGGCGUCGACGUUGCAGUGGCAGCGCUGCAAUCGGUUCGCUGUUCCUUUUACGCUUAUUA
..((((((((((((.....((((((.....))))))........))))).(((((((((((.(((.......)))...))))))))))))))))))..((.((.......))))...... ( -47.32)
>consensus
UUGCCGAUUGGGGUUAUAAUGGAUUUCGACAGUCCAAGAGUUUUGCUCCAGCAGCGCUGCCGGCGUCAGCGUCGCAGUUGCAGCGCUGCAAUCGGUUCGCUGUUCCUUUUACGCUUAUUA
..((((((((((((.....((((((.....))))))........))))).(((((((((((((((....))))).....)))))))))))))))))..((.((.......))))...... (-46.47 = -46.25 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:32:11 2006