Locus 4789

Sequence ID	3R_DroMel_CAF1
Location	12,521,387 – 12,521,509
Length	122
Max. P	0.999366

overview

Window 8

Location	12,521,387 – 12,521,490
Length	103
Sequences	5
Columns	107
Reading direction	forward
Mean pairwise identity	95.62
Mean single sequence MFE	-24.19
Consensus MFE	-24.11
Energy contribution	-24.11
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-1.94
Structure conservation index	1.00
SVM decision value	3.54
SVM RNA-class probability	0.999366
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12521387 103 + 27905053
----UCUCUCUUUCUGCCCCGCUGGAUGUAUACGUGGAUAUAAAUGUGCAUAUAUCUCUGGCUCUUGCUCACUUUUUAUAUUUGCGCCGGCGAACUUCAAUUGUUCA
----................(((((.......((..((((((((.(((...........(((....))))))..))))))))..)))))))((((.......)))). ( -24.11)
>DroSec_CAF1 10371 107 + 1
UCCCUCUCUCUUUCUGCCCCGCUGGAUGUAUACGUGGAUAUAAAUGUGCAUAUAUCUCUGGCUCUUGCUCACUUUUUAUAUUUGCGCCGGCGAACUUCAAUUGUUCA
....................(((((.......((..((((((((.(((...........(((....))))))..))))))))..)))))))((((.......)))). ( -24.11)
>DroSim_CAF1 10118 105 + 1
U--CUCUCUCUUUCUGCCCCGCUGGAUGUAUACGUGGAUAUAAAUGUGCAUAUAUCUCUGGCUCUUGCUCACUUUUUAUAUUUGCGCCGGCGAACUUCAAUUGUUCA
.--.................(((((.......((..((((((((.(((...........(((....))))))..))))))))..)))))))((((.......)))). ( -24.11)
>DroEre_CAF1 7938 101 + 1
------UCUCUUUCUGUCCCGCUGGAUAUAUACGUGGAUAUAAAUGUGCAUAUAUCUCUGGCUCUUGCUCACUUUUUAUAUUUGCGCCGGCGAACUUCAAUUGUUCA
------..............(((((.......((..((((((((.(((...........(((....))))))..))))))))..)))))))((((.......)))). ( -24.11)
>DroYak_CAF1 7260 101 + 1
------UCUCUUUCUGCCCCGCUGGAUAUAUACGUGGAUAUAAAUGUGCAUAUAUCUCGGGCUCUUGCUCACUUUUUAUAUUUGCGCCGGCGAACUUCAAUUGUUCA
------.........(((.(((.((((((((((((........))))..)))))))).((((....)))).............)))..)))((((.......)))). ( -24.50)
>consensus
____UCUCUCUUUCUGCCCCGCUGGAUGUAUACGUGGAUAUAAAUGUGCAUAUAUCUCUGGCUCUUGCUCACUUUUUAUAUUUGCGCCGGCGAACUUCAAUUGUUCA
....................(((((.......((..((((((((.(((...........(((....))))))..))))))))..)))))))((((.......)))). (-24.11 = -24.11 +  -0.00)

alignment

secondary structure

dotplot

Window 9

Location	12,521,417 – 12,521,509
Length	92
Sequences	6
Columns	94
Reading direction	reverse
Mean pairwise identity	81.55
Mean single sequence MFE	-24.04
Consensus MFE	-15.75
Energy contribution	-14.87
Covariance contribution	-0.89
Combinations/Pair	1.17
Mean z-score	-2.19
Structure conservation index	0.66
SVM decision value	0.62
SVM RNA-class probability	0.801426
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12521417 92 - 27905053
GAUUGUUUGUGUUGGCUGCUGAACAAUUGAAGUUCGCCGGCGCAAAUAUAAA-AAGUGAGCAAGA-GCCAGAGAUAUAUGCACAUUUAUAUCCA
...(((((((((((((....((((.......)))))))))))))))))....-...((.((....-))))(.((((((........))))))). ( -24.60)
>DroPse_CAF1 9207 77 - 1
GCUUGUUUGUGUUUGCUGCCGAACAAUUGAAGUUCGCCGGCGAAAAUAUAAAAAAGUGGGCAAAAAGUGCGAGCAGG-----------------
.((((((((..(((..((((.(..........((((....))))............).))))..)))..))))))))----------------- ( -22.95)
>DroSim_CAF1 10150 92 - 1
GAUUGUUUGUGUUGGCUGCUGAACAAUUGAAGUUCGCCGGCGCAAAUAUAAA-AAGUGAGCAAGA-GCCAGAGAUAUAUGCACAUUUAUAUCCA
...(((((((((((((....((((.......)))))))))))))))))....-...((.((....-))))(.((((((........))))))). ( -24.60)
>DroEre_CAF1 7966 92 - 1
GAUUGUUUGUGUUGGCUGCUGAACAAUUGAAGUUCGCCGGCGCAAAUAUAAA-AAGUGAGCAAGA-GCCAGAGAUAUAUGCACAUUUAUAUCCA
...(((((((((((((....((((.......)))))))))))))))))....-...((.((....-))))(.((((((........))))))). ( -24.60)
>DroYak_CAF1 7288 92 - 1
GAUUGUUUGUGUUGGCUGCUGAACAAUUGAAGUUCGCCGGCGCAAAUAUAAA-AAGUGAGCAAGA-GCCCGAGAUAUAUGCACAUUUAUAUCCA
...(((((((((((((....((((.......)))))))))))))))))....-....(.((....-)).)(.((((((........))))))). ( -24.00)
>DroPer_CAF1 13264 76 - 1
GCUUGUUUGUGUUUGCUGCCGAACAAUUGAAGUUCGCCGGCGAAAAUAUAAA-AAGUGGGCAAAAAGUGCGAGCAGG-----------------
.((((((((..(((..((((.(..........((((....))))........-...).))))..)))..))))))))----------------- ( -23.50)
>consensus
GAUUGUUUGUGUUGGCUGCUGAACAAUUGAAGUUCGCCGGCGCAAAUAUAAA_AAGUGAGCAAGA_GCCAGAGAUAUAUGCACAUUUAUAUCCA
..(((((..(.(((((((.(((((.......))))).)))).)))..........)..)))))............................... (-15.75 = -14.87 +  -0.89)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:38:59 2006