Locus 5540

Sequence ID X_DroMel_CAF1
Location 14,332,295 – 14,332,385
Length 90
Max. P 0.500000
window8993

overview

Window 3

Location 14,332,295 – 14,332,385
Length 90
Sequences 5
Columns 105
Reading direction reverse
Mean pairwise identity 81.49
Mean single sequence MFE -14.20
Consensus MFE -10.28
Energy contribution -10.08
Covariance contribution -0.20
Combinations/Pair 1.12
Mean z-score -1.47
Structure conservation index 0.72
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14332295 90 - 22224390
CCCAAAUCACCCAAAAUCACAAAAA----------GCAAAAAAUAUUUAUAUGGAAGGGGGCAAGGC-----GAGCCACUUAAUAUAGAGAUUUAUGCUAAUCAA
........................(----------(((.(((...(((((((..(((..(((.....-----..))).))).)))))))..))).))))...... ( -15.30)
>DroSec_CAF1 44648 82 - 1
CCUAA--------AAAUCACAAAAA----------GCUAAAAAUAUUUAUAAGGAGGGGGGCAAGGC-----GAGCCACUUAAUAUAGAGAUUUAUGCUAAUCAA
.....--------...........(----------((...((((.((((((..(((...(((.....-----..))).)))..)))))).))))..)))...... ( -14.00)
>DroSim_CAF1 41993 82 - 1
CCCAA--------AAAUCACAAAAA----------GCAAAAAAUAUUUAUAUGGAGGGGGGCAAGGC-----GAGCCACUUAAUAUAGAGAUUUAUGCUAAUCAA
.....--------...........(----------(((.(((...(((((((.(((...(((.....-----..))).))).)))))))..))).))))...... ( -15.80)
>DroEre_CAF1 43564 92 - 1
CCCAAA--------AAUCACAAAUAAAAAAGAAAAGAAAGAAGUAUUUAUGUGGAGGGGGGCAAGGC-----GAGCCACUUAAUAUAGAGAUUUAUGCUAAUCAA
......--------................((..((....((((.(((((((.(((...(((.....-----..))).))).))))))).))))...))..)).. ( -13.80)
>DroYak_CAF1 46834 87 - 1
CCAAAA------AAAAUCACACAAAAAA------------AUAUAUUUAUAUGGAAGGGGGCAAGGCGAAGCGAGCCACUUAAUAUAGAGAUUUAUGCUAAUCAA
......------................------------.....(((((((..(((..(((..(......)..))).))).)))))))((((......)))).. ( -12.10)
>consensus
CCCAAA_______AAAUCACAAAAA__________GCAAAAAAUAUUUAUAUGGAGGGGGGCAAGGC_____GAGCCACUUAAUAUAGAGAUUUAUGCUAAUCAA
.............................................(((((((..(((..(((............))).))).)))))))((((......)))).. (-10.28 = -10.08 +  -0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:50:28 2006