Locus 4298

Sequence ID 2L_DroMel_CAF1
Location 12,297,830 – 12,297,922
Length 92
Max. P 0.931590
window6775

overview

Window 5

Location 12,297,830 – 12,297,922
Length 92
Sequences 6
Columns 110
Reading direction forward
Mean pairwise identity 75.63
Mean single sequence MFE -22.54
Consensus MFE -11.74
Energy contribution -12.10
Covariance contribution 0.36
Combinations/Pair 1.19
Mean z-score -2.14
Structure conservation index 0.52
SVM decision value 1.21
SVM RNA-class probability 0.931590
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12297830 92 + 22407834
AAC-----AUUC-UCAGC-CAAUUGCACAAUUGAUAACAAUUAAUUUGUGCAG-U-GCGCAUU-----UU-GCGU--GUUUGUGCAAAUAAAUUAGUUGCACAUUGGCC-
...-----....-...((-((((((((((((((((....))))).))))))))-)-((((...-----..-))))--...(((((((.........))))))).)))).- ( -29.00)
>DroVir_CAF1 146046 95 + 1
AAU-----CGUC-CCAGC-CAAUUGCAUAUUUGAUAACAAUUAAUUUGGCCAG-UUGCGCGCUCGAGU-------UGCUUUGUGCAAAUAAAUUAGCUGACAAUUUUGUG
...-----....-.((((-.((((...((((((...((((.((((((((((..-....).)).)))))-------))..)))).)))))))))).))))........... ( -19.20)
>DroPse_CAF1 183230 92 + 1
AAC-----AUUC-UCAAC-CAAUUGCACAUUCGAUAACAAUUAAUUUGUGCAG-U-GCGCAUU-----UU-GCGU--GUUUGUGCAAAUAAAUUAGUAGGACCCCCCCC-
...-----....-....(-(.((((......)))).((((((.(((((..(((-.-.(((...-----..-))).--.).))..))))).)))).)).)).........- ( -18.10)
>DroWil_CAF1 141380 101 + 1
-UCUUUCGAUUCGUUGGCUAAAUUGCCUAUUUGAUAACAAUUAAUUUGUGCAUUU-GCGCAUU-----UUGGCGU--GUUUGUGCAAAUAAAUUAGCUAACAAUUUAGAG
-.((((.((((.(((((((((......((.(((....))).))(((((..((..(-((((...-----...))))--)..))..)))))...))))))))))))).)))) ( -28.80)
>DroAna_CAF1 109258 93 + 1
AAC-----AUUC-UCAGC-CAAUUGCACAUUCGAUAACAAUUAAUUUGUGCAG-U-GCGCAUU-----UU-GCGU--GUUUGUGCAAAUAAAUUAGUUGGCCAUUUCUCU
...-----....-...((-((((((..............(((.(((((..(((-.-.(((...-----..-))).--.).))..))))).)))))))))))......... ( -22.03)
>DroPer_CAF1 188770 88 + 1
AAC-----AUUC-UCAAC-CAAUUGCACAUUCGAUAACAAUUAAUUUGUGCAG-U-GCGCAUU-----UU-GCGU--GUUUGUGCAAAUAAAUUAGUAGGACCCC-----
...-----....-....(-(.((((......)))).((((((.(((((..(((-.-.(((...-----..-))).--.).))..))))).)))).)).)).....----- ( -18.10)
>consensus
AAC_____AUUC_UCAGC_CAAUUGCACAUUCGAUAACAAUUAAUUUGUGCAG_U_GCGCAUU_____UU_GCGU__GUUUGUGCAAAUAAAUUAGUUGGACAUUUCCC_
..............((((..(((((............))))).(((((..(((...((((...........))))....)))..)))))......))))........... (-11.74 = -12.10 +   0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:14:27 2006