Locus 2026

Sequence ID 2R_DroMel_CAF1
Location 7,651,437 – 7,651,542
Length 105
Max. P 0.991578
window3352 window3353

overview

Window 2

Location 7,651,437 – 7,651,542
Length 105
Sequences 3
Columns 107
Reading direction forward
Mean pairwise identity 76.49
Mean single sequence MFE -29.27
Consensus MFE -17.85
Energy contribution -20.27
Covariance contribution 2.42
Combinations/Pair 1.10
Mean z-score -2.50
Structure conservation index 0.61
SVM decision value 2.28
SVM RNA-class probability 0.991578
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7651437 105 + 20766785
CAUUAAGCAUACACAAAGGCGCGUCGGAGCCCAA-AAGGAUACACUCGUAUCCUUUGGGCCAGUGGCUCUUUUGUUUGUUC-UUGGGCUUCUUGUUAUUUUCCUAUG
..(((((.(((.(((((((.((....(.((((((-(.((((((....))))))))))))))....)).))))))).))).)-))))..................... ( -33.60)
>DroSim_CAF1 74019 105 + 1
CAUUAAGUAUACACAAAGGCGCGUCGGAGCCCAA-AAGGAUACACUCGUAUCCUUUGGGCCUGUGGCCCUUUUGUUUGUUC-UUGGGCUUCUUGUUAUUUUCCUAUG
..(((((.(((.(((((((.((..(((.((((((-(.((((((....))))))))))))))))..)).))))))).))).)-))))..................... ( -36.70)
>DroAna_CAF1 97843 92 + 1
CAUUAAACAUAUACAG----GCGUCGAAGCCCAAAAAGGAUAUGCCC--AUCCUUUU---------UUCGGUUGUUUGUUCCUUUUGCUUAGUUUAAUUUUCUUAUG
.(((((((.......(----((......)))..(((((((.(((..(--(.((....---------...)).))..)))))))))).....)))))))......... ( -17.50)
>consensus
CAUUAAGCAUACACAAAGGCGCGUCGGAGCCCAA_AAGGAUACACUCGUAUCCUUUGGGCC_GUGGCUCUUUUGUUUGUUC_UUGGGCUUCUUGUUAUUUUCCUAUG
.........................(((((((((.((((((((....)))))))).((((.....)))).............)))))))))................ (-17.85 = -20.27 +   2.42)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 7,651,437 – 7,651,542
Length 105
Sequences 3
Columns 107
Reading direction reverse
Mean pairwise identity 76.49
Mean single sequence MFE -27.30
Consensus MFE -14.02
Energy contribution -15.83
Covariance contribution 1.81
Combinations/Pair 1.08
Mean z-score -2.54
Structure conservation index 0.51
SVM decision value 0.62
SVM RNA-class probability 0.802388
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7651437 105 - 20766785
CAUAGGAAAAUAACAAGAAGCCCAA-GAACAAACAAAAGAGCCACUGGCCCAAAGGAUACGAGUGUAUCCUU-UUGGGCUCCGACGCGCCUUUGUGUAUGCUUAAUG
.......................((-(.....(((((.(.((....((((((((((((((....)))))).)-))))))).....)).).))))).....))).... ( -27.50)
>DroSim_CAF1 74019 105 - 1
CAUAGGAAAAUAACAAGAAGCCCAA-GAACAAACAAAAGGGCCACAGGCCCAAAGGAUACGAGUGUAUCCUU-UUGGGCUCCGACGCGCCUUUGUGUAUACUUAAUG
..((((..........(.(((((((-((..........(((((...)))))...((((((....))))))))-))))))).).(((((....)))))...))))... ( -34.60)
>DroAna_CAF1 97843 92 - 1
CAUAAGAAAAUUAAACUAAGCAAAAGGAACAAACAACCGAA---------AAAAGGAU--GGGCAUAUCCUUUUUGGGCUUCGACGC----CUGUAUAUGUUUAAUG
.........(((((((((.((...................(---------((((((((--(....))))))))))((((......))----)))).)).))))))). ( -19.80)
>consensus
CAUAGGAAAAUAACAAGAAGCCCAA_GAACAAACAAAAGAGCCAC_GGCCCAAAGGAUACGAGUGUAUCCUU_UUGGGCUCCGACGCGCCUUUGUGUAUGCUUAAUG
..((((............((((((((((............((.....)).....((((((....))))))))))))))))...((((......))))...))))... (-14.02 = -15.83 +   1.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:19:13 2006