Locus 3083

Sequence ID	2R_DroMel_CAF1
Location	10,549,826 – 10,549,981
Length	155
Max. P	0.694832

overview

Window 0

Location	10,549,826 – 10,549,941
Length	115
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	89.08
Mean single sequence MFE	-27.23
Consensus MFE	-20.39
Energy contribution	-20.39
Covariance contribution	0.00
Combinations/Pair	1.09
Mean z-score	-1.77
Structure conservation index	0.75
SVM decision value	0.34
SVM RNA-class probability	0.694832
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10549826 115 - 20766785
GCUCCGAUCAGGCAAUUAAAUGGAAGAUUAUUCAUAUAUAUGU--AUAA---UAACCUGCUGGCGAAUAAUGCGUGAUUAAUCAUUUGCCGAUCGAGAGCUCUUAUAAAUUACCCAGCUA
(((((((((.((((.......((...(((((.(((....))).--))))---)..))))))(((((((.((.........)).)))))))))))).)))).................... ( -27.61)
>DroSec_CAF1 47614 111 - 1
GCUCCGAUCAGGCAAUUAAAUGGAAGAUUAUACAGAUAU------AUAA---UAACCUGCUGGCGAAUAAUGCGCUAUUAAUCAUUUGCCGAUCGAGAGCUCCUAUAAAUUACCCAGCUA
(((((((((.(((((......((...((((((......)------))))---)..))...(((((.......)))))........)))))))))).)))).................... ( -28.40)
>DroSim_CAF1 39413 111 - 1
GCUCCGAUCAGGCAAUUAAAUGAAAGAUUAUACAGAUAU------UUAA---UAACCUGCUGGCGAAUAAUGCGCGAUUAAUCAAUUGCCGAUCGAGAGCUCUUAUAAAUUACCCAGCUA
(((((((((.(((((((........(((((..(((....------....---.......)))(((.......)))...))))))))))))))))).)))).................... ( -26.66)
>DroEre_CAF1 44073 116 - 1
GCUGCGAUCGGGCAAUUAAAUGGGAGAUUAUACAGAUGGGAGUAUAUAA---UAACCUGCUGGCAAAUAAUGCGCGAUUAAUCAUUUGCCGAUCGAGAGCUCUUAUAAAUUAC-CAGCUA
(((.(((((((.....(((((((..((((...(((.((((.........---...)))))))(((.....)))..))))..))))))))))))))..))).............-...... ( -26.30)
>DroYak_CAF1 44229 120 - 1
GCUCCGAUCGGGCAAUUAAAUGGGAGAUUAUACAGAUACGAGUAUAUAAUAAUAACCUGCUGGCAAAUAAUGCGCCAUUAAUCAUUUGCUGAUCGAGAGCUCUUAUAAAUUACCCAGCUA
(((((((((((.(((......(((..(((((....(((....)))...)))))..)))..((((.........))))........)))))))))).)))).................... ( -27.20)
>consensus
GCUCCGAUCAGGCAAUUAAAUGGAAGAUUAUACAGAUAU__GU__AUAA___UAACCUGCUGGCGAAUAAUGCGCGAUUAAUCAUUUGCCGAUCGAGAGCUCUUAUAAAUUACCCAGCUA
(((((((((.((((...........................................))))(((((((.((.........)).)))))))))))).)))).................... (-20.39 = -20.39 +   0.00)

alignment

secondary structure

dotplot

Window 1

Location	10,549,866 – 10,549,981
Length	115
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	88.05
Mean single sequence MFE	-23.84
Consensus MFE	-17.47
Energy contribution	-18.47
Covariance contribution	1.00
Combinations/Pair	1.08
Mean z-score	-1.70
Structure conservation index	0.73
SVM decision value	0.15
SVM RNA-class probability	0.608616
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10549866 115 + 20766785
UAAUCACGCAUUAUUCGCCAGCAGGUUA---UUAU--ACAUAUAUAUGAAUAAUCUUCCAUUUAAUUGCCUGAUCGGAGCAGUUCGAAAAUGGAACUUUCUCUGGCACCCACACAUCACU
................(((((.((((((---((((--(......)))).)))))))(((((((((((((((....)).))))))...))))))).......))))).............. ( -25.20)
>DroSec_CAF1 47654 111 + 1
UAAUAGCGCAUUAUUCGCCAGCAGGUUA---UUAU------AUAUCUGUAUAAUCUUCCAUUUAAUUGCCUGAUCGGAGCAGUUCGAAAAUGGAACUUUCUCUGGCACCCACACAUCACU
................(((((.(((..(---((((------((....))))))).((((((((((((((((....)).))))))...))))))))...)))))))).............. ( -25.70)
>DroSim_CAF1 39453 111 + 1
UAAUCGCGCAUUAUUCGCCAGCAGGUUA---UUAA------AUAUCUGUAUAAUCUUUCAUUUAAUUGCCUGAUCGGAGCAGUUCGAAAAUGGAACUUUCUCUGGCACCCACACAUCACC
................((((((((((.(---((((------((....(......)....))))))).)))))...((((.(((((.......)))))))))))))).............. ( -24.20)
>DroEre_CAF1 44112 117 + 1
UAAUCGCGCAUUAUUUGCCAGCAGGUUA---UUAUAUACUCCCAUCUGUAUAAUCUCCCAUUUAAUUGCCCGAUCGCAGCAGCUCCAAAAUGGAACUUUCUCCGGCACCCACACAACACU
...............(((((((.((..(---(((((((........))))))))..)).......((((......))))..))).......(((......)))))))............. ( -19.70)
>DroYak_CAF1 44269 120 + 1
UAAUGGCGCAUUAUUUGCCAGCAGGUUAUUAUUAUAUACUCGUAUCUGUAUAAUCUCCCAUUUAAUUGCCCGAUCGGAGCAGCUCGAAAAUGGAACUUUCUCUGGCACCCACACAUCAUC
...............((((((.(((((.......(((((........))))).....((((((..((((((....)).)))).....)))))))))))...))))))............. ( -24.40)
>consensus
UAAUCGCGCAUUAUUCGCCAGCAGGUUA___UUAU__AC__AUAUCUGUAUAAUCUUCCAUUUAAUUGCCUGAUCGGAGCAGUUCGAAAAUGGAACUUUCUCUGGCACCCACACAUCACU
................((((((((((.................))))).......((((((((((((((((....)).))))))...))))))))......))))).............. (-17.47 = -18.47 +   1.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:47:07 2006