Locus 3371

Sequence ID X_DroMel_CAF1
Location 8,992,364 – 8,992,470
Length 106
Max. P 0.601508
window5523

overview

Window 3

Location 8,992,364 – 8,992,470
Length 106
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 74.33
Mean single sequence MFE -30.08
Consensus MFE -10.55
Energy contribution -11.63
Covariance contribution 1.08
Combinations/Pair 1.12
Mean z-score -1.76
Structure conservation index 0.35
SVM decision value 0.14
SVM RNA-class probability 0.601508
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8992364 106 + 22224390
AAUCGCAACUAUAUGAUGAACCA---------GCAGCAUGGAGCGCCAAAUGCGCAGAAUGCACCGAAUUUGGGUCAGAAUCCAGGCCAAAAUCUUGGCCAAAAGCAGCCCGGAG-----
....(((.............(((---------......))).((((.....))))....))).(((....(((((....)))))((((((....))))))..........)))..----- ( -29.80)
>DroSec_CAF1 4293 94 + 1
AAUCGCAACUAUAUUAUGAACCA---------GCAGCAUGUUGCGCCAAAUGCGCAGAAUGCGCCGAAUUUGGGUCAGAAUCCAGGCC------------AAAAGCAGCCUGGAG-----
................(((.(((---------((.((((.((((((.....)))))).))))))......))).)))...(((((((.------------.......))))))).----- ( -31.10)
>DroSim_CAF1 5966 94 + 1
AAUCGCAACUAUAUGAUGAACCA---------GCAGCAUGGUGCGCCAAAUGCGCAGAAUGUGCCGAAUUUGGGUCAGAAUCCAGGCC------------AAAAGCAGCCUGGAG-----
................(((.(((---------(((.(((..(((((.....)))))..))))))......))).)))...(((((((.------------.......))))))).----- ( -29.70)
>DroEre_CAF1 4284 106 + 1
AAUCGCAACUACAUGAUGAGCCAACAGCAUCAGCAGCAUGUUGCGCCAAAUCCG---------CCGAGUUUAAAUCAGAAGCCAGGCCAAAAUCUUGGCCAGAAGCAGUCUGGAG-----
...((((((....((.(((((.....)).))).))....)))))).........---------...........(((((.((..((((((....))))))....))..)))))..----- ( -27.50)
>DroYak_CAF1 5834 111 + 1
AAUCGCAACUACAUGAUGAACCAACCGCAUCCGCAGCAUGGUGCACCAAAUGCG---------CCGAGCUUAAGUCAGAAGCCAGGCCAGAAUCUUGGCCAAAAGCAGUCCGGAGCAGGA
..(((((......)).))).....((((.((((.(((.(((((((.....))))---------))).)))..........((..((((((....))))))....))....)))))).)). ( -32.30)
>consensus
AAUCGCAACUAUAUGAUGAACCA_________GCAGCAUGGUGCGCCAAAUGCGCAGAAUG__CCGAAUUUGGGUCAGAAUCCAGGCCA_AAUCUUGGCCAAAAGCAGCCUGGAG_____
..(((((....((((.((...............)).)))).))).((((((.((..........)).))))))....))..((((((....................))))))....... (-10.55 = -11.63 +   1.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:57:45 2006