Locus 4218

Sequence ID	X_DroMel_CAF1
Location	11,053,651 – 11,053,819
Length	168
Max. P	0.912200

overview

Window 2

Location	11,053,651 – 11,053,751
Length	100
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	86.44
Mean single sequence MFE	-30.12
Consensus MFE	-23.23
Energy contribution	-24.04
Covariance contribution	0.81
Combinations/Pair	1.11
Mean z-score	-2.12
Structure conservation index	0.77
SVM decision value	0.03
SVM RNA-class probability	0.547401
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11053651 100 + 22224390
GUGAUGGUUUAAAACACUAAGCUGUAAUUGGGGAAUUGGCUUGGCCA----------------AAAGCAUGGACAUGGCCAAAAGUUAACGCACACAAUUGCGCAAUUCCCUUGUU----
...((((((((......))))))))(((.(((((((((..(((((((----------------............))))))).......((((......))))))))))))).)))---- ( -30.20)
>DroSec_CAF1 5816 100 + 1
GUGAUGGUUUAAAACACUAAGCUGUAAUUGGGGAAUUGGCUUGGCCA----------------AAAGCAUGGACAUGGCCAAAAGUUAACGCACACAAUUGCGCAAUUCCCUUUUU----
...((((((((......))))))))....(((((((((..(((((((----------------............))))))).......((((......)))))))))))))....---- ( -29.70)
>DroSim_CAF1 5096 100 + 1
GUGAUGGUUUAAAACACUAAGCUGUAAUUGGGGAAUUGGCUUGGCCA----------------AAAGCAUGGACAUGGCCAAAAGUUAACGCACACAAUUGCGCAAUUCCCUUGUU----
...((((((((......))))))))(((.(((((((((..(((((((----------------............))))))).......((((......))))))))))))).)))---- ( -30.20)
>DroEre_CAF1 8040 100 + 1
GUGAUGGUUUAAAACACUAAGCUGUAAUUGGGGAAUUCGCUUGGCCA----------------AAAGCAUGGACAUGGCCAAAAGUUAACGCACACAAUUGCGCAAUUCCCUUGCU----
...((((((((......))))))))....((((((((.(((((((((----------------............)))))))........(((......)))))))))))))....---- ( -28.00)
>DroYak_CAF1 6412 100 + 1
GCGAUGGUUUAAAACACUAAGCUGUAAUUGGGGAAUUCGCUUGGCCA----------------AAAGCAUGGACAUGGCCAAAAGUUAACGCACACAAUUGCGCAAUUCCCUUGUU----
...((((((((......))))))))(((.((((((((.(((((((((----------------............)))))))........(((......))))))))))))).)))---- ( -28.50)
>DroAna_CAF1 32358 117 + 1
GUAAUGCUUUAAUACACUAAACUGUAAUUGGGGAAUUGGCCUGGCCGACUGGUCGACUGGCCGACAGCAUG-ACUUGGCCAAAAGUCAACGCACACAGCUG--UAAUUCCCAGGACACAA
............((((......))))....((((((((((((((((....)))))...)))).(((((.((-((((......))))))..(....).))))--))))))))......... ( -34.10)
>consensus
GUGAUGGUUUAAAACACUAAGCUGUAAUUGGGGAAUUGGCUUGGCCA________________AAAGCAUGGACAUGGCCAAAAGUUAACGCACACAAUUGCGCAAUUCCCUUGUU____
...((((((((......))))))))....(((((((((..(((((((............................))))))).......((((......)))))))))))))........ (-23.23 = -24.04 +   0.81)

alignment

secondary structure

dotplot

Window 3

Location	11,053,715 – 11,053,819
Length	104
Sequences	5
Columns	105
Reading direction	forward
Mean pairwise identity	91.23
Mean single sequence MFE	-23.04
Consensus MFE	-19.66
Energy contribution	-20.22
Covariance contribution	0.56
Combinations/Pair	1.13
Mean z-score	-1.63
Structure conservation index	0.85
SVM decision value	1.08
SVM RNA-class probability	0.912200
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11053715 104 + 22224390
AAAAGUUAACGCACACAAUUGCGCAAUUCCCUUGUUGGCCAAAAGGUCAACGAAUAAUAAGUUGUGUAGAAAAGCAAAACGGCGAAUAGCCUAUACUCUUU-UUA
...................(((((((((...(((((((((....)))))))))......)))))))))((((((......(((.....)))......))))-)). ( -25.90)
>DroSec_CAF1 5880 105 + 1
AAAAGUUAACGCACACAAUUGCGCAAUUCCCUUUUUGGCCAAAAGGUCAACGAAUAAUAAGUUGGGUAGAAAAGCGAAACGGCGAAUAGCUAAUACUCUUUGAUA
....(((((.(((......)))((.((((((...((((((....))))))..........(((..((......))..))))).)))).)).........))))). ( -19.20)
>DroSim_CAF1 5160 105 + 1
AAAAGUUAACGCACACAAUUGCGCAAUUCCCUUGUUGACCAAAAGGUCAACGAAUAAUAAGUUGGGUAGAAAAGCGAAACGGCGAAUAGCUAAUACUCUUUGAUA
....(((((.(((......)))((.(((((((((((((((....))))))))).......(((..((......))..))))).)))).)).........))))). ( -24.90)
>DroEre_CAF1 8104 104 + 1
AAAAGUUAACGCACACAAUUGCGCAAUUCCCUUGCUGGC-AAAAGGUCAACGAAUAAUAAAUUGUGUAGAAAAGCGGAAUGGCGAAUAGCUGAUUCCCUUUGAAA
............((((((((..((((.....))))((((-.....))))..........))))))))...((((.((((((((.....))).))))))))).... ( -23.70)
>DroYak_CAF1 6476 104 + 1
AAAAGUUAACGCACACAAUUGCGCAAUUCCCUUGUUGGC-AAAAGGUCAACGAAUAAUAAGUUAUGUGGAAAAGCGAAAUGGCGAAUAGCUGACUCCCUUUGAAA
...(((((.(((.....(((.(((..((((.((((((((-.....))))))))((((....))))..))))..))).))).)))..))))).............. ( -21.50)
>consensus
AAAAGUUAACGCACACAAUUGCGCAAUUCCCUUGUUGGCCAAAAGGUCAACGAAUAAUAAGUUGUGUAGAAAAGCGAAACGGCGAAUAGCUAAUACUCUUUGAUA
.((((.....(((......)))((.(((((((((((((((....))))))))).......(((.(((......))).))))).)))).)).......)))).... (-19.66 = -20.22 +   0.56)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:19:29 2006