Locus 7370

Sequence ID	X_DroMel_CAF1
Location	18,367,152 – 18,367,296
Length	144
Max. P	0.927324

overview

Window 7

Location	18,367,152 – 18,367,267
Length	115
Sequences	4
Columns	118
Reading direction	forward
Mean pairwise identity	91.85
Mean single sequence MFE	-28.75
Consensus MFE	-25.43
Energy contribution	-26.69
Covariance contribution	1.25
Combinations/Pair	1.00
Mean z-score	-1.97
Structure conservation index	0.88
SVM decision value	1.18
SVM RNA-class probability	0.927324
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18367152 115 + 22224390
CUAAUUUGGCGCUAGGUGCGUGUGCCACUCCCCCAAUUCCAUUCAUUGAAUUGAAAUGACCCCCAUCC---CCACUGGUCAUCGUUUCCACAUGCUGGAAACUAGGCACAGUGGGCCG
......((((((.........))))))......((((((........))))))..............(---(((((((((...(((((((.....)))))))..))).)))))))... ( -35.90)
>DroSec_CAF1 11771 107 + 1
CUAAUUUGGCGCUAGGUGCGUGUGCCACUCCCCCAAUUCCAUUCAUUGAAUUGAAAUGACCCCCAUCC---CCACUGGUCAUCGUUUCCACAUGCUGGAAACCAGGCACA--------
........((((.....))))(((((.......((((((........))))))..((((((.......---.....)))))).(((((((.....)))))))..))))).-------- ( -31.50)
>DroEre_CAF1 10988 107 + 1
CUAAUUUGGCGCUAGGUGCGUGUGCCACUCCACCAUUUCCAUUCAUUGAAUUGAAAUGACCCCCAUCC---CCACUGGUCAUCGUUUUCACAUGCUGCAAACCAGGCACA--------
........((((.....))))(((((.......((((((.((((...)))).))))))..........---....((((((.(((......))).))...))))))))).-------- ( -24.50)
>DroYak_CAF1 10857 109 + 1
CUAAUUUGGCGCUAGGUGCGUGUGCCACUCCCCCAUUUCCAUUCAUUGAAUUGAAAUGACCCCCAUCCUCUCCACUGGUCAUCGUUUCCACAUGCUGGCAACCA-GCACA--------
......((((((.........))))))......((((((.((((...)))).)))))).................(((.........)))..((((((...)))-)))..-------- ( -23.10)
>consensus
CUAAUUUGGCGCUAGGUGCGUGUGCCACUCCCCCAAUUCCAUUCAUUGAAUUGAAAUGACCCCCAUCC___CCACUGGUCAUCGUUUCCACAUGCUGGAAACCAGGCACA________
........((((.....))))(((((.......((((((........))))))..((((((...............)))))).(((((((.....)))))))..)))))......... (-25.43 = -26.69 +   1.25)

alignment

secondary structure

dotplot

Window 8

Location	18,367,190 – 18,367,296
Length	106
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	83.18
Mean single sequence MFE	-32.10
Consensus MFE	-21.45
Energy contribution	-22.20
Covariance contribution	0.75
Combinations/Pair	1.00
Mean z-score	-2.33
Structure conservation index	0.67
SVM decision value	1.15
SVM RNA-class probability	0.923149
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18367190 106 + 22224390
CCAUUCAUUGAAUUGAAAUGACCCCCAUCC---CCACUGGUCAUCGUUUCCACAUGCUGGAAACUAGGCACAGUGGGCCGCACAGUGGGGCCGCACAGUGGGCAUCUCA-----------
...((((......))))..((..(((((((---((((((((....(((((((.....)))))))..(((.......))))).)))))))).......)))))..))...----------- ( -36.41)
>DroSec_CAF1 11809 94 + 1
CCAUUCAUUGAAUUGAAAUGACCCCCAUCC---CCACUGGUCAUCGUUUCCACAUGCUGGAAACCAGGCACA------------GUGGGGCCGCACAGUGGCCAUCUCA-----------
....(((((.......))))).........---(((((((((...(((((((.....)))))))..))).))------------))))((((((...))))))......----------- ( -33.10)
>DroEre_CAF1 11026 92 + 1
CCAUUCAUUGAAUUGAAAUGACCCCCAUCC---CCACUGGUCAUCGUUUUCACAUGCUGCAAACCAGGCACA------------GUGGGGCCGCACAGUGGGCAACC-------------
....(((((.......)))))..(((((((---(((((((((...((((.((.....)).))))..))).))------------)))))).......))))).....------------- ( -27.11)
>DroYak_CAF1 10895 107 + 1
CCAUUCAUUGAAUUGAAAUGACCCCCAUCCUCUCCACUGGUCAUCGUUUCCACAUGCUGGCAACCA-GCACA------------GUGGGGCCGCACAGUGGGCAUCUCAAGUGUAAGUCA
...((((......)))).((((...........((((((.....((..(((((.((((((...)))-)))..------------)))))..))..))))))((((.....))))..)))) ( -31.80)
>consensus
CCAUUCAUUGAAUUGAAAUGACCCCCAUCC___CCACUGGUCAUCGUUUCCACAUGCUGGAAACCAGGCACA____________GUGGGGCCGCACAGUGGGCAUCUCA___________
....(((((.......)))))............(((((((((...(((((((.....)))))))..)))...............(((....))).))))))................... (-21.45 = -22.20 +   0.75)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:37:12 2006