Locus 3013

Sequence ID X_DroMel_CAF1
Location 8,049,024 – 8,049,129
Length 105
Max. P 0.650809
window4934

overview

Window 4

Location 8,049,024 – 8,049,129
Length 105
Sequences 6
Columns 105
Reading direction forward
Mean pairwise identity 51.59
Mean single sequence MFE -27.81
Consensus MFE -5.55
Energy contribution -3.73
Covariance contribution -1.83
Combinations/Pair 2.20
Mean z-score -2.42
Structure conservation index 0.20
SVM decision value 0.24
SVM RNA-class probability 0.650809
Prediction RNA
WARNING Mean pairwise identity too low.

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8049024 105 + 22224390
UACCAAAAAUCCAAAAAGGACUAAGCCGCACUUGCUGCCUGUCAUAAUGACGCAAAUCAUUGCUUAGGUCAGUGACGGUGAAUACCCAAAACGAUCACAGGCGGC
.........(((.....)))....(((((..(..(((((((((.....)))((((....))))..))).)))..)..((((.............))))..))))) ( -27.72)
>DroVir_CAF1 18568 102 + 1
ACACUCAUCUUUGC-GAUGUAUGUAUGUUCG-UAGAUGUGAGCAUGUAUGUGCUGGAUAAUGUACAUGCGUGUACAU-AUGAAUGAAUAUGCAUGUGUACAAAAA
((((.((((.....-)))).(((((((((((-(..(((((.((((((((((((........)))))))))))).)))-))..))))))))))))))))....... ( -40.70)
>DroSec_CAF1 24680 102 + 1
UACCAAAAAACCAA-GAGGACUAAGCCGCAG-UGAUGCCUCUCAUAAUGGCGCAAAUCAUAGCUUAGGUCAGUGACG-UAAAUUCCCAAAACGAUCACAGGCGGC
..........((..-..)).....(((((..-(((((((.........)))((........))....))))((((((-(...........))).))))..))))) ( -23.30)
>DroEre_CAF1 19206 101 + 1
UACCAAA-ACCCGA-AAGCACUAAGCCGCAG-UGAUGCCUGUCAUAAUGGUGCAAAUCAUUGCUUGGGUCAGUGACG-UAAAUUCCCAAAAGGAUCACAGGCGGC
.......-...(..-..)......(((((.(-((((.(((....(((((((....))))))).(((((.........-......))))).))))))))..))))) ( -27.76)
>DroWil_CAF1 23611 102 + 1
UACAUAGAUUAAUC-UAAGGAAUAGAUGCAC-CAAGAGACAUAGAGAGAUGCCAGAUCUUUUGGAAUUUCCAUACAU-ACACAGAAGCAUGUAAAAGGAUAUACA
...........(((-((.....)))))...(-((((((((((......))).....))))))))....(((.(((((-.(......).)))))...)))...... ( -14.60)
>DroYak_CAF1 24807 102 + 1
UAACAAAUAACCGA-AAGGACUAAGCCGCAG-UGAUGCCUGCCAUAAUGGCGCAAAUCAUUGCUUAGGUCAGUGACG-UAAACUCCCAAAACGAUCAUAGGCGGC
..........((..-..)).....(((((((-((((...((((.....))))...))))))))....(((.((((((-(...........))).)))).)))))) ( -32.80)
>consensus
UACCAAAAAUCCGA_AAGGACUAAGCCGCAG_UGAUGCCUGUCAUAAUGGCGCAAAUCAUUGCUUAGGUCAGUGACG_UAAAUUCCCAAAACGAUCACAGGCGGC
........................(((((..................((((((........))....))))((((...................))))..))))) ( -5.55 =  -3.73 +  -1.83)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:48:56 2006