Locus 4420

Sequence ID 2L_DroMel_CAF1
Location 12,705,570 – 12,705,684
Length 114
Max. P 0.500000
window6958

overview

Window 8

Location 12,705,570 – 12,705,684
Length 114
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 74.47
Mean single sequence MFE -43.45
Consensus MFE -22.20
Energy contribution -22.65
Covariance contribution 0.45
Combinations/Pair 1.28
Mean z-score -1.60
Structure conservation index 0.51
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12705570 114 + 22407834
GCUCU-----GUUUAUUUC-UUACAGUGGGUGUGGGAGAAGCGGCCAACUUUGCGGCCUACGCCUUUGCCCCCGCUUCAUUGGUCACUCCGUUGGGCGCGCUGAGUGUUAUCAUCUCAGC
.....-----.....((((-(((((.....))))))))).(((.(((((...((((.....((....))..))))......((.....))))))).)))((((((((....)).)))))) ( -37.50)
>DroVir_CAF1 1208 119 + 1
GUUAUCGUUUGUGUGUGCC-UUGCAGUGGGCUUGGGCGAAGCAGCCAAUUUUGCCGCGUAUGCAUUCGCACCCGCCUCCCUGGUGACGCCGCUGGGCGCGCUGAGCGUCAUCAUCUCGGC
(....((((((.(((((((-...((((((((...(((......)))......)))((((.(((....)))..((((.....))))))))))))))))))))))))))....)........ ( -43.60)
>DroPse_CAF1 338 113 + 1
GUCAU-----CAUU-GUCU-UUGCAGUGGGCCUGGGUGAGGCGGCUAACUUUGCCGCCUACGCCUUUGCGCCCGCUUCCCUGGUGACCCCCCUGGGGGCACUGAGUGUGAUUAUUUCGUC
((((.-----((((-....-....((((((((.((((((((((((.......))))))).)))))..).))))))).....((((.((((....)))))))).))))))))......... ( -52.90)
>DroGri_CAF1 430 112 + 1
GAUAUC-------UGUUUU-UUGCAGUGGGUCUUGGCGAGGCAGCCAAUUUUACGGCGUAUGCGUUUGCUCCCGCCUCGCUGGUGACGCCCCUGGGCGCACUGAGUGUCAUCAUUUCGGC
(((((.-------......-...(((((.((((..(((((((.(((........)))(((......)))....)))))))..).)))(((....))).))))).)))))........... ( -41.80)
>DroWil_CAF1 745 115 + 1
AAUCA-----AUUUCUUUCUUUACAGUGGGACUGGGUGAGGCGGCCAACUUCGCUGCCUAUGCCUUUGCUCCGGCGUCUCUCGUCACACCUCUGGGUGCUCUCAGUGUUAUCAUAUCAGC
.....-----............(((.(((((..((((((((((((.......))))))).))))).......((((.....)))).((((....)))).))))).)))............ ( -32.30)
>DroPer_CAF1 338 113 + 1
AUCAU-----CAUU-GUCU-UUGCAGUGGGCCUGGGUGAGGCGGCUAACUUUGCCGCCUACGCCUUUGCGCCCGCUUCCCUGGUGACCCCCCUGGGGGCACUGAGUGUGAUUAUUUCGUC
...((-----(((.-.((.-....((((((((.((((((((((((.......))))))).)))))..).))))))).....((((.((((....))))))))))..)))))......... ( -52.60)
>consensus
GUUAU_____CUUU_UUCC_UUGCAGUGGGCCUGGGUGAGGCGGCCAACUUUGCCGCCUACGCCUUUGCGCCCGCUUCCCUGGUGACCCCCCUGGGCGCACUGAGUGUCAUCAUUUCGGC
.....................(((.(((((...(((((..((.((.......)).))...))))).....)))))......((((.((((....))))))))..)))............. (-22.20 = -22.65 +   0.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:17:22 2006