Locus 8424

Sequence ID	3R_DroMel_CAF1
Location	22,455,196 – 22,455,292
Length	96
Max. P	0.892353

overview

Window 4

Location	22,455,196 – 22,455,292
Length	96
Sequences	6
Columns	101
Reading direction	forward
Mean pairwise identity	81.83
Mean single sequence MFE	-27.00
Consensus MFE	-19.15
Energy contribution	-20.57
Covariance contribution	1.42
Combinations/Pair	1.17
Mean z-score	-2.62
Structure conservation index	0.71
SVM decision value	0.97
SVM RNA-class probability	0.892353
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22455196 96 + 27905053
UG-AU----ACAUGAGUAACAAGGCAUCCAUCUAAAUAGCCCCAAAUGAGGUUUACGAUGCUCUUGAUGCUCUGUCCGCGGCUUUUUAUAGCCAGAUUUUA
..-..----(((.(((((.(((((((((.........((((.(....).))))...))))).)))).))))))))....((((......))))........ ( -25.70)
>DroPse_CAF1 110490 79 + 1
CUCAG----AGGUGAGUAAGAGGGAAU-----GAAAUUGGCCCGAAUCGGCUUUACGA--CUCAGCAUA-----------CCUUUUUGUAGUUCGAUUUUA
...((----(((((.((....(((...-----........)))((.(((......)))--.)).)).))-----------)))))................ ( -15.40)
>DroSec_CAF1 88519 97 + 1
CACAU----ACAUGAGUAACAAGGCAUCCAUCUAAAUAGCCCCAAAUGGGGUUUACGAUGCUCUUGAUGCUCUGUCCGCGGCUUUUUAUAGCCAGAUUUUA
.....----(((.(((((.(((((((((.........((((((....))))))...))))).)))).))))))))....((((......))))........ ( -32.60)
>DroSim_CAF1 85189 97 + 1
CACAU----ACAUGAGUAACAAGGCAUCCAUCUAAAUAGCCCCAAAUGGGGUUUACGAUACUCUUGAUGCUCUGUCCGCGGCUUUUUAUAGCCAGAUUUUA
.....----(((.(((((.(((((.....(((.....((((((....))))))...)))..))))).))))))))....((((......))))........ ( -26.40)
>DroEre_CAF1 89098 101 + 1
UAGAUACAAACAUGAGUAACAAAGCAUCCGUCUAAAUAGCCCCAAAUGGGGUUUACGAUGCUCUUGAUGCUCUGUCCGCGGCUUUUUAUAGCCAGAUUUUA
.........(((.(((((.(((((((((.((......((((((....)))))).)))))))).))).))))))))....((((......))))........ ( -31.40)
>DroYak_CAF1 87780 97 + 1
UACAU----GCAUGAGUAACAAAGCAUCCAUCUAAAUAGCCCCAAAUGGGGUUUACGAUGCUCUUGAUGCUCUGUCCGCGGCUUUUUAUAGCCAGAUUUUA
.....----(((.(((((.(((((((((.........((((((....))))))...)))))).))).))))))))....((((......))))........ ( -30.50)
>consensus
CACAU____ACAUGAGUAACAAGGCAUCCAUCUAAAUAGCCCCAAAUGGGGUUUACGAUGCUCUUGAUGCUCUGUCCGCGGCUUUUUAUAGCCAGAUUUUA
.............(((((.(((((((((.........((((((....))))))...)))))).))).))))).......((((......))))........ (-19.15 = -20.57 +   1.42)

alignment

secondary structure

dotplot

Window 5

Location	22,455,196 – 22,455,292
Length	96
Sequences	6
Columns	101
Reading direction	reverse
Mean pairwise identity	81.83
Mean single sequence MFE	-26.80
Consensus MFE	-16.77
Energy contribution	-17.92
Covariance contribution	1.14
Combinations/Pair	1.23
Mean z-score	-2.26
Structure conservation index	0.63
SVM decision value	0.48
SVM RNA-class probability	0.752713
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22455196 96 - 27905053
UAAAAUCUGGCUAUAAAAAGCCGCGGACAGAGCAUCAAGAGCAUCGUAAACCUCAUUUGGGGCUAUUUAGAUGGAUGCCUUGUUACUCAUGU----AU-CA
........((((......))))..((((((((...((((.(((((.....((((....))))((....))...)))))))))...))).)))----.)-). ( -25.40)
>DroPse_CAF1 110490 79 - 1
UAAAAUCGAACUACAAAAAGG-----------UAUGCUGAG--UCGUAAAGCCGAUUCGGGCCAAUUUC-----AUUCCCUCUUACUCACCU----CUGAG
...................((-----------(...(((((--(((......)))))))))))......-----...........((((...----.)))) ( -14.00)
>DroSec_CAF1 88519 97 - 1
UAAAAUCUGGCUAUAAAAAGCCGCGGACAGAGCAUCAAGAGCAUCGUAAACCCCAUUUGGGGCUAUUUAGAUGGAUGCCUUGUUACUCAUGU----AUGUG
........((((......))))(((.((((((...((((.(((((.....((((....))))((....))...)))))))))...))).)))----.))). ( -30.10)
>DroSim_CAF1 85189 97 - 1
UAAAAUCUGGCUAUAAAAAGCCGCGGACAGAGCAUCAAGAGUAUCGUAAACCCCAUUUGGGGCUAUUUAGAUGGAUGCCUUGUUACUCAUGU----AUGUG
........((((......))))(((.((((((...((((.(((((.....((((....))))((....))...)))))))))...))).)))----.))). ( -28.10)
>DroEre_CAF1 89098 101 - 1
UAAAAUCUGGCUAUAAAAAGCCGCGGACAGAGCAUCAAGAGCAUCGUAAACCCCAUUUGGGGCUAUUUAGACGGAUGCUUUGUUACUCAUGUUUGUAUCUA
........((((......))))((((((((((.....((((((((.....((((....))))((....))...))))))))....))).)))))))..... ( -31.80)
>DroYak_CAF1 87780 97 - 1
UAAAAUCUGGCUAUAAAAAGCCGCGGACAGAGCAUCAAGAGCAUCGUAAACCCCAUUUGGGGCUAUUUAGAUGGAUGCUUUGUUACUCAUGC----AUGUA
........((((......))))((((((((((((((.....((((.((((((((....))))...))))))))))))))))))).....)))----..... ( -31.40)
>consensus
UAAAAUCUGGCUAUAAAAAGCCGCGGACAGAGCAUCAAGAGCAUCGUAAACCCCAUUUGGGGCUAUUUAGAUGGAUGCCUUGUUACUCAUGU____AUGUA
........((((......)))).......(((...((((.(((((.....((((....))))((....))...)))))))))...)))............. (-16.77 = -17.92 +   1.14)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:11:09 2006