Locus 8293

Sequence ID X_DroMel_CAF1
Location 20,627,465 – 20,627,606
Length 141
Max. P 0.970541
window13616 window13617

overview

Window 6

Location 20,627,465 – 20,627,583
Length 118
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 84.12
Mean single sequence MFE -29.07
Consensus MFE -21.45
Energy contribution -21.57
Covariance contribution 0.12
Combinations/Pair 1.22
Mean z-score -2.53
Structure conservation index 0.74
SVM decision value 1.66
SVM RNA-class probability 0.970541
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20627465 118 + 22224390
UUAAUAGUUGCUCAAUUUGCAUGUGUGAAGAUGC--ACUGCAUUGUUUUUUGUAUUCUAAGGCGAUUUUCACUUUAAAUUGUCUAACGUUUUGGCAGCUAAAUAUUGCCUUCCAUAACAU
....(((((((.(((..((((.((((......))--)))))).................(((((((((.......)))))))))......)))))))))).................... ( -26.20)
>DroSec_CAF1 31601 118 + 1
UUAAUAGUUGCCCAAUUUGCAUGUGUGAAGAUGC--ACUCCAUUGUUUUUUGUAUUCUUAGGCGAAUUUCACUUUAAAUUGCCUAACGUUUCGGCAGCUAAAUAUUGCAUUCCAUAGCAA
....(((((((((((...(((.((((......))--)).....)))...))).....((((((((.((.......)).))))))))......))))))))....((((........)))) ( -27.70)
>DroEre_CAF1 31625 115 + 1
UUAAUAGUUGCCCAAUUUGCAUGUGUUAAGAUGUGUGUUGUUUUUUUUCUUGUAUUCUUAGGCGAUUUUCACUUUAAAUUGCCUGACGUUUUGGCAACUAAAUAUUGCCU-----AGCAU
....((((((((((((.(((((.(....).))))).)))).................(((((((((((.......)))))))))))......)))))))).....(((..-----.))). ( -29.10)
>DroYak_CAF1 32478 117 + 1
UUAAUAGUCGGCCAAUUUGCAUGUGUGAAUGUGUGUAUUGCACUUU---UGGUAUUCUUAGGCGAUUUUCACUUUAAAUUGCCUGACGUUUUGGCAGCUAAAUAUUGCCUGUCAUAGCAU
......(((.(((((((..(....)..)))((((.....))))...---))))......(((((((((.......))))))))))))(((.(((((((........).)))))).))).. ( -33.30)
>consensus
UUAAUAGUUGCCCAAUUUGCAUGUGUGAAGAUGC__ACUGCAUUGUUUUUUGUAUUCUUAGGCGAUUUUCACUUUAAAUUGCCUAACGUUUUGGCAGCUAAAUAUUGCCUUCCAUAGCAU
....((((((((......((((.(....).)))).......................(((((((((((.......)))))))))))......)))))))).....(((........))). (-21.45 = -21.57 +   0.12)

alignment

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secondary structure

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dotplot

Postscript

Window 7

Location 20,627,503 – 20,627,606
Length 103
Sequences 4
Columns 103
Reading direction forward
Mean pairwise identity 83.66
Mean single sequence MFE -20.88
Consensus MFE -16.73
Energy contribution -17.72
Covariance contribution 1.00
Combinations/Pair 1.14
Mean z-score -1.66
Structure conservation index 0.80
SVM decision value 0.37
SVM RNA-class probability 0.710817
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20627503 103 + 22224390
CAUUGUUUUUUGUAUUCUAAGGCGAUUUUCACUUUAAAUUGUCUAACGUUUUGGCAGCUAAAUAUUGCCUUCCAUAACAUUUAAGCUCUGAACUGCAGCUGCA
...(((...((((((((..(((((((((.......)))))))))...(((.(((..((........))...))).)))...........))).)))))..))) ( -18.30)
>DroSec_CAF1 31639 103 + 1
CAUUGUUUUUUGUAUUCUUAGGCGAAUUUCACUUUAAAUUGCCUAACGUUUCGGCAGCUAAAUAUUGCAUUCCAUAGCAAUUAAGCUCUAAACUGCAGCUGUA
.................((((((((.((.......)).)))))))).......((((((....(((((........)))))...((........)))))))). ( -21.50)
>DroEre_CAF1 31665 98 + 1
UUUUUUUUCUUGUAUUCUUAGGCGAUUUUCACUUUAAAUUGCCUGACGUUUUGGCAACUAAAUAUUGCCU-----AGCAUUCUAACUCUUAACGGCAGCUGCA
.........((((....(((((((((((.......))))))))))).(((..(((((.......))))).-----)))................))))..... ( -20.00)
>DroYak_CAF1 32518 100 + 1
CACUUU---UGGUAUUCUUAGGCGAUUUUCACUUUAAAUUGCCUGACGUUUUGGCAGCUAAAUAUUGCCUGUCAUAGCAUUCUAACUCUUAAUGGCAGCUGCA
.....(---((.((((.(((((((((((.......))))))))))).(((.(((((((........).)))))).)))............)))).)))..... ( -23.70)
>consensus
CAUUGUUUUUUGUAUUCUUAGGCGAUUUUCACUUUAAAUUGCCUAACGUUUUGGCAGCUAAAUAUUGCCUUCCAUAGCAUUCAAACUCUUAACGGCAGCUGCA
.................(((((((((((.......))))))))))).......((((((......(((........))).....((........)))))))). (-16.73 = -17.72 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:00:19 2006