Locus 8303

Sequence ID X_DroMel_CAF1
Location 20,641,754 – 20,641,846
Length 92
Max. P 0.974179
window13633 window13634

overview

Window 3

Location 20,641,754 – 20,641,846
Length 92
Sequences 4
Columns 92
Reading direction forward
Mean pairwise identity 91.49
Mean single sequence MFE -23.68
Consensus MFE -21.61
Energy contribution -21.43
Covariance contribution -0.19
Combinations/Pair 1.08
Mean z-score -2.17
Structure conservation index 0.91
SVM decision value 1.72
SVM RNA-class probability 0.974179
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20641754 92 + 22224390
UCUCGGAAUAUGUCCGGGUGCAAAUUAUUAAAGAUUGUGUGGAAAAUAAGUUUUUCAUGUUUCCCAAAAACUUUAUCCGCUGACAGUCCGAA
..(((((...((((((((((..................((((((((....))))))))((((.....))))..))))))..)))).))))). ( -22.30)
>DroSec_CAF1 46017 92 + 1
UCUCGGAAUGUGUCCGGGUGCAAAUUAUUAUAGAUUGUGUGGAAAAUAAGUUUUUCAUGUUCACCAAAAACUUUAUCCGCUGACAGUCCAAA
.((((((.....))))))..............(((((((((((....((((((((..........))))))))..)))))..)))))).... ( -21.80)
>DroEre_CAF1 46798 87 + 1
UCCCGGAAUGUGUCCGGGUGCAAAUUAUUAAAGAUUGUGUGGGAAAUAAGUUUUUCAUGUUUCCCAAAAACUUUAUCCGCUGCCAGU-----
.((((((.....)))))).(((......(((((.((...(((((((((.(.....).))))))))).)).))))).....)))....----- ( -25.80)
>DroYak_CAF1 47664 92 + 1
UCCCGGAAUGUGUCCGGGUGCAAAUUAUUAAAGAUUGUGUGGAAAAUAAGUUUUUCAUUUUUCCCAAAAACUUUAUCCGCUGCCAGUCAGUA
.((((((.....))))))..............(((((.(((((....((((((((..........))))))))..)))))...))))).... ( -24.80)
>consensus
UCCCGGAAUGUGUCCGGGUGCAAAUUAUUAAAGAUUGUGUGGAAAAUAAGUUUUUCAUGUUUCCCAAAAACUUUAUCCGCUGACAGUCCGAA
.((((((.....))))))..............(((((.(((((....((((((((..........))))))))..)))))...))))).... (-21.61 = -21.43 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 20,641,754 – 20,641,846
Length 92
Sequences 4
Columns 92
Reading direction reverse
Mean pairwise identity 91.49
Mean single sequence MFE -21.15
Consensus MFE -15.79
Energy contribution -16.47
Covariance contribution 0.69
Combinations/Pair 1.08
Mean z-score -2.01
Structure conservation index 0.75
SVM decision value 0.30
SVM RNA-class probability 0.677226
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20641754 92 - 22224390
UUCGGACUGUCAGCGGAUAAAGUUUUUGGGAAACAUGAAAAACUUAUUUUCCACACAAUCUUUAAUAAUUUGCACCCGGACAUAUUCCGAGA
((((((.((((.((((((((((.((.(((((((.((((.....))))))))).)).)).)))))....))))).....))))...)))))). ( -21.00)
>DroSec_CAF1 46017 92 - 1
UUUGGACUGUCAGCGGAUAAAGUUUUUGGUGAACAUGAAAAACUUAUUUUCCACACAAUCUAUAAUAAUUUGCACCCGGACACAUUCCGAGA
((((((.((((.(.(((..((((((((.((....)).))))))))....))).).(((...........)))......))))...)))))). ( -17.90)
>DroEre_CAF1 46798 87 - 1
-----ACUGGCAGCGGAUAAAGUUUUUGGGAAACAUGAAAAACUUAUUUCCCACACAAUCUUUAAUAAUUUGCACCCGGACACAUUCCGGGA
-----.......((((((((((....((((((..((((.....))))))))))......)))))....))))).((((((.....)))))). ( -23.00)
>DroYak_CAF1 47664 92 - 1
UACUGACUGGCAGCGGAUAAAGUUUUUGGGAAAAAUGAAAAACUUAUUUUCCACACAAUCUUUAAUAAUUUGCACCCGGACACAUUCCGGGA
............((((((((((.((.((((((((.(((.....))))))))).)).)).)))))....))))).((((((.....)))))). ( -22.70)
>consensus
UUCGGACUGGCAGCGGAUAAAGUUUUUGGGAAACAUGAAAAACUUAUUUUCCACACAAUCUUUAAUAAUUUGCACCCGGACACAUUCCGAGA
............((((((((((....((((((..((((.....))))))))))......)))))....))))).((((((.....)))))). (-15.79 = -16.47 +   0.69)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:00:34 2006