Locus 2573

Sequence ID X_DroMel_CAF1
Location 6,897,575 – 6,897,667
Length 92
Max. P 0.993971
window4204 window4205

overview

Window 4

Location 6,897,575 – 6,897,667
Length 92
Sequences 3
Columns 112
Reading direction forward
Mean pairwise identity 75.38
Mean single sequence MFE -24.73
Consensus MFE -14.95
Energy contribution -16.40
Covariance contribution 1.45
Combinations/Pair 1.08
Mean z-score -1.80
Structure conservation index 0.60
SVM decision value 0.70
SVM RNA-class probability 0.827303
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6897575 92 + 22224390
AAUUCCUUUUGGCCAACA--U----UACCAUUUG--------------CACAUGGAAAUUUUAGCGCCACUUGAGGCACCCCUCGUGCAUUUUGUUCUAGGAAAUUUGAUUU
..(((((...(..(((..--.----..((((...--------------...))))........((((.....((((....))))))))...)))..).)))))......... ( -18.30)
>DroSec_CAF1 21917 105 + 1
AAUUCCUUUUGGCCACCA--U----UUCCAUUUGCCUUC-UUCUGAAGCACAUGGAAAUUUUAGCGCCACUUGAGGAUACCCUCGUGCAUUUUGUUCUAGGAAAUUUGAUUU
..(((((...(..((..(--(----((((((.(((.(((-....)))))).))))))))....((((.....((((....))))))))....))..).)))))......... ( -28.90)
>DroEre_CAF1 21228 107 + 1
AAUUCCUCCUUG----GAAAUGGGGUUCCAUUUGCCUCCUUUCUGCGCCACAUGGAAAUUUGAACGCCACUCGAGGC-GCCCCCGUGUAUUUUGUUCUAGGAAAUUUGAUUU
......((((.(----((.((((((((((((..(((........).))...)))))).......((((......)))-).))))))........))).)))).......... ( -27.00)
>consensus
AAUUCCUUUUGGCCA_CA__U____UUCCAUUUGCCU_C_UUCUG___CACAUGGAAAUUUUAGCGCCACUUGAGGC_ACCCUCGUGCAUUUUGUUCUAGGAAAUUUGAUUU
..(((((..................((((((.((((((......)))))).))))))......((((.....((((....))))))))..........)))))......... (-14.95 = -16.40 +   1.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 6,897,575 – 6,897,667
Length 92
Sequences 3
Columns 112
Reading direction reverse
Mean pairwise identity 75.38
Mean single sequence MFE -29.24
Consensus MFE -16.00
Energy contribution -16.50
Covariance contribution 0.50
Combinations/Pair 1.09
Mean z-score -2.90
Structure conservation index 0.55
SVM decision value 2.44
SVM RNA-class probability 0.993971
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6897575 92 - 22224390
AAAUCAAAUUUCCUAGAACAAAAUGCACGAGGGGUGCCUCAAGUGGCGCUAAAAUUUCCAUGUG--------------CAAAUGGUA----A--UGUUGGCCAAAAGGAAUU
.........(((((.........((((((.((((((((......)))))).......)).))))--------------))..((((.----.--.....))))..))))).. ( -26.31)
>DroSec_CAF1 21917 105 - 1
AAAUCAAAUUUCCUAGAACAAAAUGCACGAGGGUAUCCUCAAGUGGCGCUAAAAUUUCCAUGUGCUUCAGAA-GAAGGCAAAUGGAA----A--UGGUGGCCAAAAGGAAUU
.........(((((...........(((((((....))))..)))(.((((..((((((((.((((((....-))).))).))))))----)--)..)))))...))))).. ( -31.60)
>DroEre_CAF1 21228 107 - 1
AAAUCAAAUUUCCUAGAACAAAAUACACGGGGGC-GCCUCGAGUGGCGUUCAAAUUUCCAUGUGGCGCAGAAAGGAGGCAAAUGGAACCCCAUUUC----CAAGGAGGAAUU
.........((((...............((((((-(((......)))))......((((((.((.(.(......).).)).))))))))))...((----....)))))).. ( -29.80)
>consensus
AAAUCAAAUUUCCUAGAACAAAAUGCACGAGGGC_GCCUCAAGUGGCGCUAAAAUUUCCAUGUG___CAGAA_G_AGGCAAAUGGAA____A__UG_UGGCCAAAAGGAAUU
.........(((((...........(((((((....))))..)))..........((((((.((((..........)))).))))))..................))))).. (-16.00 = -16.50 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:38:05 2006