Locus 5911

Sequence ID 3R_DroMel_CAF1
Location 15,558,320 – 15,558,417
Length 97
Max. P 0.911582
window9654 window9655

overview

Window 4

Location 15,558,320 – 15,558,417
Length 97
Sequences 4
Columns 108
Reading direction forward
Mean pairwise identity 90.65
Mean single sequence MFE -37.30
Consensus MFE -29.64
Energy contribution -31.95
Covariance contribution 2.31
Combinations/Pair 1.03
Mean z-score -1.84
Structure conservation index 0.79
SVM decision value 0.52
SVM RNA-class probability 0.768441
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15558320 97 + 27905053
UCAGCAAAGUUCUGGGAAUUUUCUAUAUAUUCCUGCCGGUGCGCACGGGUCGUAUGAGCAAUGCACGGCAGCGCGUAGCUA-----------UACGUCCCAUGUACGU
...(((..(...(((((((.........))))))).)..)))(((.(((.(((((.(((.((((.(....).)))).))))-----------)))).))).))).... ( -31.50)
>DroSec_CAF1 83595 105 + 1
UCAGCAAAGUUCUGGGAAUUUUCUAU--UUCCCUGCCGGUGCGCACGGGUCGUAUGAGCAAUGUACGGC-GCGCGAAGCUAUCCGUUGCGCAUACGUCCCAUGUACGU
...(((..((...(((((........--))))).))...)))(((.(((.((((((.((((((.(..((-.......))..).)))))).)))))).))).))).... ( -40.60)
>DroSim_CAF1 77582 106 + 1
UCAGCAAAGUUCUGGGAAUUUUCUAU--UUCCCUGCCGGUGCGCACGGGUCGUAUGAGCAAUGUACGGCAGCGCGAAGCUAUCCGUUGCGCAUACGUCCCAUGUACGU
...(((..((...(((((........--))))).))...)))(((.(((.((((((.((((((...(..(((.....)))..))))))).)))))).))).))).... ( -40.60)
>DroYak_CAF1 82137 106 + 1
UCAGCAAAGUUCUGGGAAUUUUCUAU--UUCCCUGCCGGUGCGCACGGGUCGUAUGAGCAAUGCAAGGCAGCGCGAAGCUAUCCGUAGCGCAUACGUCCCAUGUACGU
...(((..((...(((((........--))))).))...)))(((.(((.((((((.((.(((...(..(((.....)))..)))).)).)))))).))).))).... ( -36.50)
>consensus
UCAGCAAAGUUCUGGGAAUUUUCUAU__UUCCCUGCCGGUGCGCACGGGUCGUAUGAGCAAUGCACGGCAGCGCGAAGCUAUCCGUUGCGCAUACGUCCCAUGUACGU
...(((..((...(((((..........))))).))...)))(((.(((.((((((.((((((...(((........)))...)))))).)))))).))).))).... (-29.64 = -31.95 +   2.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 15,558,320 – 15,558,417
Length 97
Sequences 4
Columns 108
Reading direction reverse
Mean pairwise identity 90.65
Mean single sequence MFE -38.86
Consensus MFE -29.41
Energy contribution -32.91
Covariance contribution 3.50
Combinations/Pair 1.00
Mean z-score -2.81
Structure conservation index 0.76
SVM decision value 1.08
SVM RNA-class probability 0.911582
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15558320 97 - 27905053
ACGUACAUGGGACGUA-----------UAGCUACGCGCUGCCGUGCAUUGCUCAUACGACCCGUGCGCACCGGCAGGAAUAUAUAGAAAAUUCCCAGAACUUUGCUGA
..(..((((((.((((-----------((((...((((....))))...))).))))).))))))..)..((((((((((.........)))))........))))). ( -33.40)
>DroSec_CAF1 83595 105 - 1
ACGUACAUGGGACGUAUGCGCAACGGAUAGCUUCGCGC-GCCGUACAUUGCUCAUACGACCCGUGCGCACCGGCAGGGAA--AUAGAAAAUUCCCAGAACUUUGCUGA
..(..((((((.((((((.(((((((...((.....))-.))))....))).)))))).))))))..)..((((((((((--........))))).......))))). ( -41.11)
>DroSim_CAF1 77582 106 - 1
ACGUACAUGGGACGUAUGCGCAACGGAUAGCUUCGCGCUGCCGUACAUUGCUCAUACGACCCGUGCGCACCGGCAGGGAA--AUAGAAAAUUCCCAGAACUUUGCUGA
..(..((((((.((((((.(((((((.((((.....))))))))....))).)))))).))))))..)..((((((((((--........))))).......))))). ( -43.41)
>DroYak_CAF1 82137 106 - 1
ACGUACAUGGGACGUAUGCGCUACGGAUAGCUUCGCGCUGCCUUGCAUUGCUCAUACGACCCGUGCGCACCGGCAGGGAA--AUAGAAAAUUCCCAGAACUUUGCUGA
..(..((((((.((((((.((...((.((((.....)))))).......)).)))))).))))))..)..((((((((((--........))))).......))))). ( -37.51)
>consensus
ACGUACAUGGGACGUAUGCGCAACGGAUAGCUUCGCGCUGCCGUACAUUGCUCAUACGACCCGUGCGCACCGGCAGGGAA__AUAGAAAAUUCCCAGAACUUUGCUGA
..(..((((((.((((((.(((((((.((((.....))))))))....))).)))))).))))))..)..((((((((((..........))))).......))))). (-29.41 = -32.91 +   3.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:07:35 2006