Locus 8427

Sequence ID	3R_DroMel_CAF1
Location	22,460,516 – 22,460,653
Length	137
Max. P	0.992196

overview

Window 8

Location	22,460,516 – 22,460,613
Length	97
Sequences	6
Columns	109
Reading direction	reverse
Mean pairwise identity	77.89
Mean single sequence MFE	-27.35
Consensus MFE	-17.23
Energy contribution	-19.29
Covariance contribution	2.06
Combinations/Pair	1.30
Mean z-score	-3.44
Structure conservation index	0.63
SVM decision value	2.31
SVM RNA-class probability	0.992196
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22460516 97 - 27905053
AAAACAUUUAACUGACAAUCGCAAGAGGGCAAAGCAUUUUAUAAUAUUUUGCCCUCAAAUGUGGUUGGAUGAAUGUA--UCCAAAUCGGGAAUA----------CGGCC
...(((((((.....((((((((.((((((((((.(((....))).))))))))))...))))))))..))))))).--(((......)))...----------..... ( -31.10)
>DroGri_CAF1 137981 95 - 1
CGAUCGUUUGUCGGGCAAUCCACAAGCCUUAAAGCGUUUUAUAAUCUUU-GCC-------------AGGGAACUGUAAAACCAAAUAGGGAAUAAUGGUGGAAUAGUCC
.(((.....)))((((..(((((...(((((....((((((((.((((.-...-------------.))))..))))))))....))))).......)))))...)))) ( -21.70)
>DroSec_CAF1 93756 97 - 1
AAAACAUUUAACUAGCAAUCGCAAGAGGGCAAAGCAUUUUAUAAUAUUUUGCCCUCAAAAGUGGUUGGAUGAAUGUA--UCCAAAUCGGGAAUA----------CGGCC
....((((((((((((....))..((((((((((.(((....))).)))))))))).....))))))))))..((((--(((......)).)))----------))... ( -31.80)
>DroSim_CAF1 90522 97 - 1
AAAACAUUUAACUAACAAUCGCAAGAGGGCAAAGCAUUUUAUAAUAUUUUGCCCUCAAAAGUGGUUAGAUGAAUGUA--UCCAAAUCGGGAAUA----------CGGCC
...(((((((.(((((...(....((((((((((.(((....))).))))))))))....)..))))).))))))).--(((......)))...----------..... ( -29.60)
>DroEre_CAF1 94433 97 - 1
AAAGCAUUUAACUAAAAAUCGCAAGAGGGCUAAGCAUUUUAUAAUAUUUUGCCCUCAAAAAUGGUUGCAUGAAUGUA--UCCAAAUCGGGCAUA----------CUGCC
...((((((......)))).))..((((((.(((.(((....))).))).)))))).....(((.((((....))))--.))).....(((...----------..))) ( -22.10)
>DroYak_CAF1 93283 97 - 1
AAAACAUUUAACUCACAAUCGCAAGAGGGCAAAGCAUUUUAUAACAUUUUGCCCUCAAAAGUGGUUGGAUGAAUGUA--ACCAAAUCGGGAAUA----------CUGCC
...(((((((..((.(((((((..((((((((((..((....))..))))))))))....)))))))))))))))).--.((.....)).....----------..... ( -27.80)
>consensus
AAAACAUUUAACUAACAAUCGCAAGAGGGCAAAGCAUUUUAUAAUAUUUUGCCCUCAAAAGUGGUUGGAUGAAUGUA__UCCAAAUCGGGAAUA__________CGGCC
...(((((((.(((((........((((((((((.(((....))).)))))))))).......))))).)))))))....((.....)).................... (-17.23 = -19.29 +   2.06)

alignment

secondary structure

dotplot

Window 9

Location	22,460,536 – 22,460,653
Length	117
Sequences	6
Columns	117
Reading direction	reverse
Mean pairwise identity	86.67
Mean single sequence MFE	-27.08
Consensus MFE	-22.68
Energy contribution	-22.83
Covariance contribution	0.15
Combinations/Pair	1.32
Mean z-score	-2.68
Structure conservation index	0.84
SVM decision value	1.23
SVM RNA-class probability	0.934069
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22460536 117 - 27905053
ACCACUAUCCCCAGCAUGAUAUAACCAAUGUGAAGAGCAAAAAACAUUUAACUGACAAUCGCAAGAGGGCAAAGCAUUUUAUAAUAUUUUGCCCUCAAAUGUGGUUGGAUGAAUGUA
.......((....((((..........))))...)).......(((((((.....((((((((.((((((((((.(((....))).))))))))))...))))))))..))))))). ( -30.10)
>DroSec_CAF1 93776 117 - 1
ACCACUAUCCCUAGCAUGAUAUAACCAAUGUGAAGAGCAAAAAACAUUUAACUAGCAAUCGCAAGAGGGCAAAGCAUUUUAUAAUAUUUUGCCCUCAAAAGUGGUUGGAUGAAUGUA
.............((((...........(((.....))).....((((((((((((....))..((((((((((.(((....))).)))))))))).....)))))))))).)))). ( -29.80)
>DroSim_CAF1 90542 117 - 1
ACCACUAUCCCCAGCAUGAUAUAACCAAUGUGAAGAGCAAAAAACAUUUAACUAACAAUCGCAAGAGGGCAAAGCAUUUUAUAAUAUUUUGCCCUCAAAAGUGGUUAGAUGAAUGUA
.......((....((((..........))))...)).......(((((((.(((((...(....((((((((((.(((....))).))))))))))....)..))))).))))))). ( -28.60)
>DroEre_CAF1 94453 117 - 1
ACCACUAUUCCCAGCAUGAUAUGACCAAUGCGAAGAGCAAAAAGCAUUUAACUAAAAAUCGCAAGAGGGCUAAGCAUUUUAUAAUAUUUUGCCCUCAAAAAUGGUUGCAUGAAUGUA
.............((((.((..(((((.(((((...((.....)).(((....)))..))))).((((((.(((.(((....))).))).)))))).....)))))..))..)))). ( -26.40)
>DroYak_CAF1 93303 117 - 1
ACCACUAUUCCCAGCAUGAUAUAACCAAUGCGAAGAGCAAAAAACAUUUAACUCACAAUCGCAAGAGGGCAAAGCAUUUUAUAACAUUUUGCCCUCAAAAGUGGUUGGAUGAAUGUA
.......(((...((((..........))))...)))......(((((((..((.(((((((..((((((((((..((....))..))))))))))....)))))))))))))))). ( -30.70)
>DroAna_CAF1 104577 117 - 1
ACCAGUAUUCCCAGCAUGAUAUAACCACGGUGAAGAGCAAAAAACAUUUGUCAGCUCCUAACCAGUCUGCGAGCCAUUUUAUAAUUUCAUUCCCGCAAAAGUCGUCGACUAAAAGCA
.............((.............(((...((((...............))))...)))((((.((((.............................)))).))))....)). ( -16.91)
>consensus
ACCACUAUCCCCAGCAUGAUAUAACCAAUGUGAAGAGCAAAAAACAUUUAACUAACAAUCGCAAGAGGGCAAAGCAUUUUAUAAUAUUUUGCCCUCAAAAGUGGUUGGAUGAAUGUA
.............((((....((((((.(((((.........................))))).((((((((((.(((....))).)))))))))).....)))))).....)))). (-22.68 = -22.83 +   0.15)

alignment

secondary structure

dotplot

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