Locus 2802

Sequence ID	2L_DroMel_CAF1
Location	7,956,725 – 7,956,824
Length	99
Max. P	0.635723

overview

Window 0

Location	7,956,725 – 7,956,824
Length	99
Sequences	5
Columns	111
Reading direction	forward
Mean pairwise identity	78.39
Mean single sequence MFE	-23.82
Consensus MFE	-9.70
Energy contribution	-10.38
Covariance contribution	0.68
Combinations/Pair	1.07
Mean z-score	-1.99
Structure conservation index	0.41
SVM decision value	0.21
SVM RNA-class probability	0.635723
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7956725 99 + 22407834
UCCGGCUCCAGCG------------UCGAGUCGGACUCGAGUCUCAAGCCCAGACCCAAACACCACGGCAGAGCCCCUGCUCGUUCCAAUGCCCACUCCCAUAUCCAUAUC
((((((((.....------------..))))))))...((((.....(((................))).((((....))))............))))............. ( -22.19)
>DroSec_CAF1 128083 101 + 1
UCCGGCUCCGGCUC----------UCCGAGUCGGACUCGAGUCUCAAGCCCAGACCCAAACACCACAGCAGAGCCCCUGCUCGUUCCAAUGCCCACUCCCAUAUCCAUAUC
...(((((((((((----------...))))))))...(.((((.......)))).).......(((((((.....))))).))......))).................. ( -23.60)
>DroSim_CAF1 128122 101 + 1
UCCGGCUCCGGCUC----------UCCGAGUCGGACUCGAGUCUCAAGCCCAGACCCAAACACCACGGCAGAGCCCCUGCUCGUUCCAAUGCCCACUCCCAUAUCCAUAUC
...(((((((((((----------...))))))))...(.((((.......)))).).......(((((((.....)))).)))......))).................. ( -25.10)
>DroEre_CAF1 129918 82 + 1
UCCGG------------------CUCCGAGUCGGACUCGAGUCUCAAGCCCAGACCCAACCAC-----------CACGGCAAUACCCAAUACCCACUCCCAUAUCCAUAUC
...((------------------(((.(((.....))))))))....(((.............-----------...)))............................... ( -11.89)
>DroYak_CAF1 133202 99 + 1
UCCGGCUCUGGCUCUGGCUCUGGCUCCGAGUCGUACUCGAGUCUCAAGCCCAGACCCAG-AGC-----------CUCUGCUCGUUCCAAUACCCACUCCCAUAUCCAUAUC
...((((((((.(((((((..(((((.(((.....))))))))...)).))))).))))-)))-----------).................................... ( -36.30)
>consensus
UCCGGCUCCGGCUC__________UCCGAGUCGGACUCGAGUCUCAAGCCCAGACCCAAACACCAC_GCAGAGCCCCUGCUCGUUCCAAUGCCCACUCCCAUAUCCAUAUC
...((..(.(((..............((((.....)))).((((.......)))).......................))).)..))........................ ( -9.70 = -10.38 +   0.68)

alignment

secondary structure

dotplot

Window 1

Location	7,956,725 – 7,956,824
Length	99
Sequences	5
Columns	111
Reading direction	reverse
Mean pairwise identity	78.39
Mean single sequence MFE	-35.30
Consensus MFE	-22.20
Energy contribution	-23.48
Covariance contribution	1.28
Combinations/Pair	1.26
Mean z-score	-1.67
Structure conservation index	0.63
SVM decision value	0.19
SVM RNA-class probability	0.626896
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7956725 99 - 22407834
GAUAUGGAUAUGGGAGUGGGCAUUGGAACGAGCAGGGGCUCUGCCGUGGUGUUUGGGUCUGGGCUUGAGACUCGAGUCCGACUCGA------------CGCUGGAGCCGGA
..................(((......(((.((((.....)))))))((((((.(((((.(((((((.....))))))))))))))------------))))...)))... ( -36.40)
>DroSec_CAF1 128083 101 - 1
GAUAUGGAUAUGGGAGUGGGCAUUGGAACGAGCAGGGGCUCUGCUGUGGUGUUUGGGUCUGGGCUUGAGACUCGAGUCCGACUCGGA----------GAGCCGGAGCCGGA
............((..(.(((......((.(((((.....)))))))..(.((((((((.(((((((.....)))))))))))))))----------.)))).)..))... ( -36.30)
>DroSim_CAF1 128122 101 - 1
GAUAUGGAUAUGGGAGUGGGCAUUGGAACGAGCAGGGGCUCUGCCGUGGUGUUUGGGUCUGGGCUUGAGACUCGAGUCCGACUCGGA----------GAGCCGGAGCCGGA
............((..(.(((......(((.((((.....)))))))..(.((((((((.(((((((.....)))))))))))))))----------.)))).)..))... ( -37.80)
>DroEre_CAF1 129918 82 - 1
GAUAUGGAUAUGGGAGUGGGUAUUGGGUAUUGCCGUG-----------GUGGUUGGGUCUGGGCUUGAGACUCGAGUCCGACUCGGAG------------------CCGGA
.........((((.((((.........)))).))))(-----------((..(((((((.(((((((.....)))))))))))))).)------------------))... ( -27.30)
>DroYak_CAF1 133202 99 - 1
GAUAUGGAUAUGGGAGUGGGUAUUGGAACGAGCAGAG-----------GCU-CUGGGUCUGGGCUUGAGACUCGAGUACGACUCGGAGCCAGAGCCAGAGCCAGAGCCGGA
...............((..((......))..))...(-----------(((-((((.(((((.(((..(..(((((.....)))))..)..)))))))).))))))))... ( -38.70)
>consensus
GAUAUGGAUAUGGGAGUGGGCAUUGGAACGAGCAGGGGCUCUGC_GUGGUGUUUGGGUCUGGGCUUGAGACUCGAGUCCGACUCGGA__________GAGCCGGAGCCGGA
..................(((.((((.....((.(.(((...))).).))..(((((((.(((((((.....))))))))))))))..............)))).)))... (-22.20 = -23.48 +   1.28)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:36:33 2006