Locus 8406

Sequence ID	3R_DroMel_CAF1
Location	22,379,060 – 22,379,161
Length	101
Max. P	0.999076

overview

Window 6

Location	22,379,060 – 22,379,161
Length	101
Sequences	5
Columns	101
Reading direction	forward
Mean pairwise identity	89.24
Mean single sequence MFE	-32.40
Consensus MFE	-26.77
Energy contribution	-27.98
Covariance contribution	1.21
Combinations/Pair	1.08
Mean z-score	-3.19
Structure conservation index	0.83
SVM decision value	3.36
SVM RNA-class probability	0.999076
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22379060 101 + 27905053
CGAGGCCACAGCCUCGCUUCUCCUUCCAUUGUGUGCGGGCCACACAACUCGAGCAUGUCCUGCCUGCAGGACACCAGCACACCAGCACACAUUUCCCCCCC
((((((....)))))).............((((((((((........)))..((.(((((((....)))))))...))......))))))).......... ( -35.10)
>DroSec_CAF1 20015 101 + 1
CGAGGCCACAGCCUCUCUUCUCCUGCCAUUGUGUGUGGGCCACACAACUCGAGCAUGUCCUGCCUGCAGGACACCAGCACACCAGCACACAUUUCCCCCCG
.(((((....)))))........(((....(((((((((((.........).)).(((((((....)))))))))).)))))..))).............. ( -31.30)
>DroSim_CAF1 15620 101 + 1
CGAGGCCACAGCCUCGCUUCUCCUGCCAUUGUGUGUGGGCCACACAACUCGAGCAUGUCCUGCCUGCAGGACACCAGCACACCAGCACACAUUUCCCCCCG
((((((....)))))).......(((....(((((((((((.........).)).(((((((....)))))))))).)))))..))).............. ( -32.60)
>DroEre_CAF1 15813 90 + 1
CGAGGCCACAGCCUCGCUUCUCCUCCCAUUGUG--UGGCCCACACAACUCGAGCAUGUCCUGCCUGCAGGACACCGGC--------ACACAUUUCCCCC-C
.(((((....)))))(((....(((...(((((--((...)))))))...)))..(((((((....)))))))..)))--------.............-. ( -31.10)
>DroYak_CAF1 16107 95 + 1
CGAGGCCACAGCCUCGCUACUCCUGCUAUUGUG--UGGCCCAUACAACUCGAGCAUGUCCUGCCUGCAGGACACCAGCAGC---ACACACAUUUCCCCC-C
.(((((....)))))(((.((..((((.(((((--((...)))))))....))))(((((((....)))))))..)).)))---...............-. ( -31.90)
>consensus
CGAGGCCACAGCCUCGCUUCUCCUGCCAUUGUGUGUGGGCCACACAACUCGAGCAUGUCCUGCCUGCAGGACACCAGCACACCAGCACACAUUUCCCCCCC
((((((....)))))).............((((((((((........)))..((.(((((((....)))))))...))......))))))).......... (-26.77 = -27.98 +   1.21)

alignment

secondary structure

dotplot

Window 7

Location	22,379,060 – 22,379,161
Length	101
Sequences	5
Columns	101
Reading direction	reverse
Mean pairwise identity	89.24
Mean single sequence MFE	-38.32
Consensus MFE	-31.00
Energy contribution	-32.40
Covariance contribution	1.40
Combinations/Pair	1.00
Mean z-score	-1.45
Structure conservation index	0.81
SVM decision value	0.17
SVM RNA-class probability	0.616778
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22379060 101 - 27905053
GGGGGGGAAAUGUGUGCUGGUGUGCUGGUGUCCUGCAGGCAGGACAUGCUCGAGUUGUGUGGCCCGCACACAAUGGAAGGAGAAGCGAGGCUGUGGCCUCG
..........(((((((.(((......((((((((....))))))))((.......))...))).))))))).............((((((....)))))) ( -38.10)
>DroSec_CAF1 20015 101 - 1
CGGGGGGAAAUGUGUGCUGGUGUGCUGGUGUCCUGCAGGCAGGACAUGCUCGAGUUGUGUGGCCCACACACAAUGGCAGGAGAAGAGAGGCUGUGGCCUCG
((((.........(..(....)..)..((((((((....)))))))).)))).((((((((.....))))))))............(((((....))))). ( -39.10)
>DroSim_CAF1 15620 101 - 1
CGGGGGGAAAUGUGUGCUGGUGUGCUGGUGUCCUGCAGGCAGGACAUGCUCGAGUUGUGUGGCCCACACACAAUGGCAGGAGAAGCGAGGCUGUGGCCUCG
...............(((..(.((((.((((((((....))))))))......((((((((.....)))))))))))).)...)))(((((....))))). ( -42.20)
>DroEre_CAF1 15813 90 - 1
G-GGGGGAAAUGUGU--------GCCGGUGUCCUGCAGGCAGGACAUGCUCGAGUUGUGUGGGCCA--CACAAUGGGAGGAGAAGCGAGGCUGUGGCCUCG
.-((.(.(....).)--------.)).((((((((....)))))))).(((..((((((((...))--))))))..)))......((((((....)))))) ( -36.70)
>DroYak_CAF1 16107 95 - 1
G-GGGGGAAAUGUGUGU---GCUGCUGGUGUCCUGCAGGCAGGACAUGCUCGAGUUGUAUGGGCCA--CACAAUAGCAGGAGUAGCGAGGCUGUGGCCUCG
.-...............---((((((.((((((((....))))))))(((...(((((.((...))--.))))))))...))))))(((((....))))). ( -35.50)
>consensus
GGGGGGGAAAUGUGUGCUGGUGUGCUGGUGUCCUGCAGGCAGGACAUGCUCGAGUUGUGUGGCCCACACACAAUGGCAGGAGAAGCGAGGCUGUGGCCUCG
.......................(((.((((((((....)))))))).(((..((((((((.....)))))))).....))).)))(((((....))))). (-31.00 = -32.40 +   1.40)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:10:43 2006