Locus 412

Sequence ID X_DroMel_CAF1
Location 1,200,438 – 1,200,544
Length 106
Max. P 0.920983
window635 window636

overview

Window 5

Location 1,200,438 – 1,200,544
Length 106
Sequences 3
Columns 106
Reading direction forward
Mean pairwise identity 94.97
Mean single sequence MFE -32.37
Consensus MFE -29.75
Energy contribution -30.20
Covariance contribution 0.45
Combinations/Pair 1.03
Mean z-score -2.41
Structure conservation index 0.92
SVM decision value 1.14
SVM RNA-class probability 0.920983
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1200438 106 + 22224390
AACAAUUAUGUGUUGUUAACUAUGGAUGAAAUUGCCAUCAAAGCUCACCAAUGGCUCCUCGAGCCUCGAGGUAUACUUUCGGGCACAUUGGCGAGGGAUACAUACC
......((((((((..........((((.......))))....(((.((((((((((((((.....)))))..........))).)))))).))).)))))))).. ( -31.70)
>DroSec_CAF1 10138 106 + 1
AACAAGUAUGUGUCGUUAACUAUAGAUGAAAUUGCCAUCAAAUCUCACCAAUGGCUCCCCGAGCCUCGAGGUGUACUUUCGGUCACAUUGGCGAGGGAUACAUACC
.....(((((((((..........((((.......))))...((((.((((((((((...))))).....(((.((.....)))))))))).))))))))))))). ( -34.90)
>DroSim_CAF1 226 106 + 1
AACAAGUAUGUGUCGUUAACUAUGGAUGAAAUUGCCAUCAAAUCUCACCAAUGGCUCCCCGAGCCUCGAGGUGUACUUUCGGUCACAUUGGCAAGGGAUACAUACC
.....(((((((((..........((((.......))))...(((..((((((((((...))))).....(((.((.....))))))))))..)))))))))))). ( -30.50)
>consensus
AACAAGUAUGUGUCGUUAACUAUGGAUGAAAUUGCCAUCAAAUCUCACCAAUGGCUCCCCGAGCCUCGAGGUGUACUUUCGGUCACAUUGGCGAGGGAUACAUACC
.....(((((((((..........((((.......))))....(((.((((((((((...)))))((((((.....))))))....))))).))).))))))))). (-29.75 = -30.20 +   0.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 1,200,438 – 1,200,544
Length 106
Sequences 3
Columns 106
Reading direction reverse
Mean pairwise identity 94.97
Mean single sequence MFE -33.33
Consensus MFE -30.96
Energy contribution -30.63
Covariance contribution -0.33
Combinations/Pair 1.10
Mean z-score -2.16
Structure conservation index 0.93
SVM decision value 0.90
SVM RNA-class probability 0.877578
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1200438 106 - 22224390
GGUAUGUAUCCCUCGCCAAUGUGCCCGAAAGUAUACCUCGAGGCUCGAGGAGCCAUUGGUGAGCUUUGAUGGCAAUUUCAUCCAUAGUUAACAACACAUAAUUGUU
..(((((....((((((((((.((.(....)....(((((.....))))).))))))))))))....(((((.....))))).............)))))...... ( -32.30)
>DroSec_CAF1 10138 106 - 1
GGUAUGUAUCCCUCGCCAAUGUGACCGAAAGUACACCUCGAGGCUCGGGGAGCCAUUGGUGAGAUUUGAUGGCAAUUUCAUCUAUAGUUAACGACACAUACUUGUU
(((((((.((.((((((((((((..(....)..))).....(((((...))))))))))))))....(((((.....)))))..........)).))))))).... ( -35.10)
>DroSim_CAF1 226 106 - 1
GGUAUGUAUCCCUUGCCAAUGUGACCGAAAGUACACCUCGAGGCUCGGGGAGCCAUUGGUGAGAUUUGAUGGCAAUUUCAUCCAUAGUUAACGACACAUACUUGUU
(((((((.(((((.(((...(((..(....)..))).....)))..)))))(((((..(......)..)))))......................))))))).... ( -32.60)
>consensus
GGUAUGUAUCCCUCGCCAAUGUGACCGAAAGUACACCUCGAGGCUCGGGGAGCCAUUGGUGAGAUUUGAUGGCAAUUUCAUCCAUAGUUAACGACACAUACUUGUU
(((((((....((((((((((((..(....)..))(((((.....)))))...))))))))))....(((((.....))))).............))))))).... (-30.96 = -30.63 +  -0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:44:00 2006