Locus 3274

Sequence ID 3R_DroMel_CAF1
Location 8,737,782 – 8,737,875
Length 93
Max. P 0.802369
window5286

overview

Window 6

Location 8,737,782 – 8,737,875
Length 93
Sequences 6
Columns 102
Reading direction forward
Mean pairwise identity 79.55
Mean single sequence MFE -21.03
Consensus MFE -15.75
Energy contribution -16.08
Covariance contribution 0.34
Combinations/Pair 1.12
Mean z-score -1.47
Structure conservation index 0.75
SVM decision value 0.62
SVM RNA-class probability 0.802369
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 8737782 93 + 27905053
AGGCCAUUCUGGAGAACAAGCAAAUGAAACUCAAGUGCAUGUAGCUCUAGCCGGGCCAAGUGGUGCAAU----AAAAAAAA-----CAAAUACAUUCGACUG
.((((...((((((.(((.(((..((.....))..))).)))..))))))...))))............----........-----................ ( -24.10)
>DroPse_CAF1 180869 84 + 1
UGGCC---GUGGAGAACAAGCAAAUGAAACUCAAGUGCAUGUAGCCUGGGCCUGGCCAAGUGGCACAGA----AAAACGAACAGUGAAAAA-----------
.((((---..((...(((.(((..((.....))..))).)))..))..))))(((((....))).))..----..................----------- ( -22.10)
>DroSec_CAF1 164350 95 + 1
AGGCCAUUCUGGAGAACAAGCAAAUGAAACUCAAGUGCAUGUAGCGCUAGCCGGGCCAAGUGGUGCAAU----AAAAA-AA--AAGAAAAUACAUUCGACUG
.((((...((((.(.(((.(((..((.....))..))).)))..).))))...))))............----.....-..--..(((......)))..... ( -19.80)
>DroSim_CAF1 181538 96 + 1
AGGCCAUUCUGGAGAACAAGCAAAUGAAACUCAAGUGCAUGUAGCGCUAGCCGGGCCAAGUGGUGCAAU----AAAAAAAA--AAGAAAAUACAUUCGACUG
.((((...((((.(.(((.(((..((.....))..))).)))..).))))...))))............----........--..(((......)))..... ( -19.80)
>DroYak_CAF1 173036 96 + 1
AGGCCAUUCUGGAGAACAAGCAAAUGAAACUCAAGUGCAUGUAGCGCUAGCCGGGCCAAGUGGUGCAAU----AAAAAAAA--AUUAAUAUACAUUCGACGG
.((((...((((.(.(((.(((..((.....))..))).)))..).))))...))))............----........--................... ( -19.70)
>DroAna_CAF1 153892 91 + 1
GGGGCAUUCUGGCGAACAAGCAAAUGAAACUCAAGUGCAUGUAGCGAUGGCCUGGCCAAGUGGCGUAGUCCACAAAAAAAAUAAAGAAACU-----------
......((((.((..(((.(((..((.....))..))).))).))(.(((.((((((....))).))).))))...........))))...----------- ( -20.70)
>consensus
AGGCCAUUCUGGAGAACAAGCAAAUGAAACUCAAGUGCAUGUAGCGCUAGCCGGGCCAAGUGGUGCAAU____AAAAAAAA__AAGAAAAUACAUUCGACUG
.((((...((((.(.(((.(((..((.....))..))).)))..).))))...))))............................................. (-15.75 = -16.08 +   0.34)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:57:14 2006