Locus 8183

Sequence ID	X_DroMel_CAF1
Location	20,346,751 – 20,346,908
Length	157
Max. P	0.950143

overview

Window 6

Location	20,346,751 – 20,346,868
Length	117
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	86.14
Mean single sequence MFE	-35.75
Consensus MFE	-25.12
Energy contribution	-26.24
Covariance contribution	1.12
Combinations/Pair	1.09
Mean z-score	-2.24
Structure conservation index	0.70
SVM decision value	0.75
SVM RNA-class probability	0.839611
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20346751 117 - 22224390
UGGCAAAUUCACCAGCCAGCGGCGGGAAAAUCCCGCUGGAGCCAAGGGAAAAUGGUGGAAAACAGCGAAAUAUC---GCGAAAUAUAACAUAAUAAGAGACAUUUUGAGCCGUUACUAAU
.(((...(((((((.((.((((((((.....))))))...))....))....))))))).....((((....))---)).............................)))......... ( -33.60)
>DroSec_CAF1 14572 120 - 1
UGGCAAAUUCGCCAGCCAGCGGCGGGAAAAUCCAGCUAGAGCCACGGGAAAAUGGUGGAAAACGGCGAAAAAUCCGGGCCGGAGAAAACAUAAUAAGGGACACUUUGAGCCGUUACUAAU
.......(((((((.((.(.(((.((.....)).......))).).))....))))))).((((((......((((...))))..........(((((....))))).))))))...... ( -32.60)
>DroSim_CAF1 16357 120 - 1
UGGCAAAUUCGCCAGCCAGCGGCGGGAAAAUCCCGCUGGAGCCACGGGAAAGUGGGGGAAAACGGCGAAAAAUCCGGGCCGGAGAAAACAUAAUAAGGGACACUUGGAGCCGUUACUAAU
.(((...((((((..((..(((((((.....)))))))...((((......)))).)).....))))))...((((((((................))....)))))))))......... ( -41.49)
>DroEre_CAF1 11370 116 - 1
UGGCAAAUUCGCCAGCCAGCGGCGGGAAAAUCCCGCUGGAGCCACGGGAAAAUGGUGGAAAACAGCGAAAAAGCAUCG--GAAAG--AUAUAAUACGGUACACUUUGAGCCGUUACUAAU
((((......))))...(((((((((.....)))((((...((((.(.....).))))....))))...((((.((((--.....--........))))...))))..))))))...... ( -34.82)
>DroYak_CAF1 15162 118 - 1
UGGCAAAUUCGCCAGCCAGCGGCGGGAAAAUCCCGCUGGAGCCGCGGGAAAAUGGUGGAAAACUGCGAAAAAUCAAAG--GAAAAAAACAUAAGUGGAGGCACUUUGAUCCGUUUCUAAU
..(((..(((((((.((.((((((((.....))))))(....))).))....)))))))....)))((((.(((((((--.......((....)).......)))))))...)))).... ( -36.24)
>consensus
UGGCAAAUUCGCCAGCCAGCGGCGGGAAAAUCCCGCUGGAGCCACGGGAAAAUGGUGGAAAACAGCGAAAAAUCAGGGC_GAAAAAAACAUAAUAAGGGACACUUUGAGCCGUUACUAAU
((((......))))...(((((((((.....)))((((...((((.(.....).))))....))))..........................................))))))...... (-25.12 = -26.24 +   1.12)

alignment

secondary structure

dotplot

Window 7

Location	20,346,791 – 20,346,908
Length	117
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	92.65
Mean single sequence MFE	-40.30
Consensus MFE	-32.22
Energy contribution	-32.10
Covariance contribution	-0.12
Combinations/Pair	1.07
Mean z-score	-1.73
Structure conservation index	0.80
SVM decision value	0.69
SVM RNA-class probability	0.824483
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20346791 117 + 22224390
CGC---GAUAUUUCGCUGUUUUCCACCAUUUUCCCUUGGCUCCAGCGGGAUUUUCCCGCCGCUGGCUGGUGAAUUUGCCAGCGACUUGGCAAUCGAAAUCCGCUCAUUGGCUGCAUCGAC
.((---((....)))).........(((........))).....(((((.....))))).((.(((..((((..(((((((....))))))).((.....)).))))..)))))...... ( -36.70)
>DroSec_CAF1 14612 120 + 1
GGCCCGGAUUUUUCGCCGUUUUCCACCAUUUUCCCGUGGCUCUAGCUGGAUUUUCCCGCCGCUGGCUGGCGAAUUUGCCAGCGACUUGGCAAUCGAAAUCCGCUCAUUGGCUGCAUCGAC
(((((((((((((((((.....((((.........))))..((((((((......)))..)))))..)))))..(((((((....)))))))..))))))))......))))........ ( -37.80)
>DroSim_CAF1 16397 120 + 1
GGCCCGGAUUUUUCGCCGUUUUCCCCCACUUUCCCGUGGCUCCAGCGGGAUUUUCCCGCCGCUGGCUGGCGAAUUUGCCAGCGCCUUGGCAAUCGAAAUCCGCUCAUUGGCUGCAUCGAC
(((((((((((((((((........((((......))))..((((((((.......).)))))))..)))))..(((((((....)))))))..))))))))......))))........ ( -45.10)
>DroEre_CAF1 11408 118 + 1
--CGAUGCUUUUUCGCUGUUUUCCACCAUUUUCCCGUGGCUCCAGCGGGAUUUUCCCGCCGCUGGCUGGCGAAUUUGCCAGCGACUUGGCAAUCGAAAUCCGCUCAUUGGCUGCAUCGAC
--((((((.....(((((....((((.........))))...)))))(((((((...((((.(.(((((((....))))))).)..))))....)))))))(((....))).)))))).. ( -44.90)
>DroYak_CAF1 15202 118 + 1
--CUUUGAUUUUUCGCAGUUUUCCACCAUUUUCCCGCGGCUCCAGCGGGAUUUUCCCGCCGCUGGCUGGCGAAUUUGCCAGCGACUUGGCAAUCGAAAUCCGCUCAUUGGCUGCAUCGAC
--............((((((...........((((((.......)))))).......((((.(.(((((((....))))))).)..))))..................))))))...... ( -37.00)
>consensus
_GCCCGGAUUUUUCGCCGUUUUCCACCAUUUUCCCGUGGCUCCAGCGGGAUUUUCCCGCCGCUGGCUGGCGAAUUUGCCAGCGACUUGGCAAUCGAAAUCCGCUCAUUGGCUGCAUCGAC
...................................((((((..(((.(((((((...((((...(((((((....)))))))....))))....))))))))))....))))))...... (-32.22 = -32.10 +  -0.12)

alignment

secondary structure

dotplot

Window 8

Location	20,346,791 – 20,346,908
Length	117
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	92.65
Mean single sequence MFE	-43.82
Consensus MFE	-34.78
Energy contribution	-35.70
Covariance contribution	0.92
Combinations/Pair	1.07
Mean z-score	-2.18
Structure conservation index	0.79
SVM decision value	1.40
SVM RNA-class probability	0.950143
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20346791 117 - 22224390
GUCGAUGCAGCCAAUGAGCGGAUUUCGAUUGCCAAGUCGCUGGCAAAUUCACCAGCCAGCGGCGGGAAAAUCCCGCUGGAGCCAAGGGAAAAUGGUGGAAAACAGCGAAAUAUC---GCG
.................((((((((((.((((((......)))))).(((((((.((.((((((((.....))))))...))....))....)))))))......)))))).))---)). ( -41.70)
>DroSec_CAF1 14612 120 - 1
GUCGAUGCAGCCAAUGAGCGGAUUUCGAUUGCCAAGUCGCUGGCAAAUUCGCCAGCCAGCGGCGGGAAAAUCCAGCUAGAGCCACGGGAAAAUGGUGGAAAACGGCGAAAAAUCCGGGCC
.........(((......(((((((...(((((..(((((((((..........))))))))).((.....))........((((.(.....).)))).....))))).)))))))))). ( -40.90)
>DroSim_CAF1 16397 120 - 1
GUCGAUGCAGCCAAUGAGCGGAUUUCGAUUGCCAAGGCGCUGGCAAAUUCGCCAGCCAGCGGCGGGAAAAUCCCGCUGGAGCCACGGGAAAGUGGGGGAAAACGGCGAAAAAUCCGGGCC
.........(((......(((((((...(((((..(((((((((......))))))...(((((((.....)))))))..)))........((........))))))).)))))))))). ( -48.20)
>DroEre_CAF1 11408 118 - 1
GUCGAUGCAGCCAAUGAGCGGAUUUCGAUUGCCAAGUCGCUGGCAAAUUCGCCAGCCAGCGGCGGGAAAAUCCCGCUGGAGCCACGGGAAAAUGGUGGAAAACAGCGAAAAAGCAUCG--
..((((((.((......))((((((...(((((.....((((((......))))))....)))))..))))))(((((...((((.(.....).))))....))))).....))))))-- ( -47.30)
>DroYak_CAF1 15202 118 - 1
GUCGAUGCAGCCAAUGAGCGGAUUUCGAUUGCCAAGUCGCUGGCAAAUUCGCCAGCCAGCGGCGGGAAAAUCCCGCUGGAGCCGCGGGAAAAUGGUGGAAAACUGCGAAAAAUCAAAG--
...(((.((.....)).((((.((((...(((((.(((((((((..........))))))))).......((((((.(....)))))))...))))))))).)))).....)))....-- ( -41.00)
>consensus
GUCGAUGCAGCCAAUGAGCGGAUUUCGAUUGCCAAGUCGCUGGCAAAUUCGCCAGCCAGCGGCGGGAAAAUCCCGCUGGAGCCACGGGAAAAUGGUGGAAAACAGCGAAAAAUCAGGGC_
(((((..(.((......)).)...)))))......(((((((((..........)))))))))(((.....)))((((...((((.(.....).))))....)))).............. (-34.78 = -35.70 +   0.92)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:57:51 2006