Locus 5085

Sequence ID	3R_DroMel_CAF1
Location	13,413,153 – 13,413,248
Length	95
Max. P	0.986765

overview

Window 7

Location	13,413,153 – 13,413,248
Length	95
Sequences	6
Columns	99
Reading direction	forward
Mean pairwise identity	91.82
Mean single sequence MFE	-26.32
Consensus MFE	-21.73
Energy contribution	-21.98
Covariance contribution	0.25
Combinations/Pair	1.07
Mean z-score	-3.43
Structure conservation index	0.83
SVM decision value	2.05
SVM RNA-class probability	0.986765
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13413153 95 + 27905053
UUUUUUUAUGCGGAACAGCAAGCAGGCAGCUUACUUUCAUCAAUGGUAUUUUGCCAUUUUUCAGCAUUUUCGCUGACAGCUUGGACCACAAAAAA----
...((((.((.((.....(((((.(((((..((((.........))))..))))).....(((((......)))))..)))))..)).)).))))---- ( -24.80)
>DroSec_CAF1 39216 95 + 1
CUUUUUUAUGCGGAACAGCAAGCAGGCAGCUUACUUUCAUCAAUGGUAUUUUGCCAUUUUUCAGCAUUUUCGCUGACAGCUUGGCCCACAAAAAA----
..(((((.((.((.....(((((.(((((..((((.........))))..))))).....(((((......)))))..))))).)))).))))).---- ( -26.40)
>DroSim_CAF1 41628 99 + 1
CUUUUUUAUGCGGAACAGCAAGCAGGCAGCUUACUUUCAUCAAUGGUAUUUUGCCAUUUUUCAGCAUUUUCGCUGACAGCUUGGCCCACAAAAAAAAUA
.((((((.((.((.....(((((.(((((..((((.........))))..))))).....(((((......)))))..))))).)))).)))))).... ( -27.20)
>DroEre_CAF1 39825 92 + 1
CUUUUUUAUGCGGAAC---AAGCAGGCAGCUUACUUUCAUCAAUGGUAUAUUGCCAUUUUUCAGCAUUUUCGCUGACAGCUUGGCCCACAAAAAA----
...((((.((.((..(---((((.(((((..((((.........))))..))))).....(((((......)))))..)))))..)).)).))))---- ( -29.30)
>DroYak_CAF1 43927 92 + 1
CUUUUUUAUGCGGAAC---AAGCAGGCAGCUUACUUUCAUCAAUGGUAUAUUGCCAUUUUUCAGCAUUUUCGCUGACAGCUUGGCCCACAAAAAA----
...((((.((.((..(---((((.(((((..((((.........))))..))))).....(((((......)))))..)))))..)).)).))))---- ( -29.30)
>DroAna_CAF1 36413 92 + 1
CUUUUUC---CGGAGGUUCGAGCAAGCAGCUUACUUUCAUCAAUGGUAUUUUGCCAUUUUUCAGCAUUUUCGCUGACAGCUUCACCCACAAAAAA----
.......---.(..(((..((((..((((..((((.........))))..))))......(((((......)))))..)))).)))..)......---- ( -20.90)
>consensus
CUUUUUUAUGCGGAACAGCAAGCAGGCAGCUUACUUUCAUCAAUGGUAUUUUGCCAUUUUUCAGCAUUUUCGCUGACAGCUUGGCCCACAAAAAA____
...((((.((.((..(...((((.(((((..((((.........))))..))))).....(((((......)))))..)))))..)).)).)))).... (-21.73 = -21.98 +   0.25)

alignment

secondary structure

dotplot

Window 8

Location	13,413,153 – 13,413,248
Length	95
Sequences	6
Columns	99
Reading direction	reverse
Mean pairwise identity	91.82
Mean single sequence MFE	-28.48
Consensus MFE	-22.34
Energy contribution	-22.28
Covariance contribution	-0.05
Combinations/Pair	1.11
Mean z-score	-3.18
Structure conservation index	0.78
SVM decision value	0.83
SVM RNA-class probability	0.861671
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13413153 95 - 27905053
----UUUUUUGUGGUCCAAGCUGUCAGCGAAAAUGCUGAAAAAUGGCAAAAUACCAUUGAUGAAAGUAAGCUGCCUGCUUGCUGUUCCGCAUAAAAAAA
----((((.(((((..(......(((((......)))))..(((((.......)))))......(((((((.....))))))))..))))).))))... ( -26.40)
>DroSec_CAF1 39216 95 - 1
----UUUUUUGUGGGCCAAGCUGUCAGCGAAAAUGCUGAAAAAUGGCAAAAUACCAUUGAUGAAAGUAAGCUGCCUGCUUGCUGUUCCGCAUAAAAAAG
----((((.(((((((((.....(((((......)))))....)))).................(((((((.....)))))))...))))).))))... ( -29.50)
>DroSim_CAF1 41628 99 - 1
UAUUUUUUUUGUGGGCCAAGCUGUCAGCGAAAAUGCUGAAAAAUGGCAAAAUACCAUUGAUGAAAGUAAGCUGCCUGCUUGCUGUUCCGCAUAAAAAAG
..((((((.(((((((((.....(((((......)))))....)))).................(((((((.....)))))))...))))).)))))). ( -31.60)
>DroEre_CAF1 39825 92 - 1
----UUUUUUGUGGGCCAAGCUGUCAGCGAAAAUGCUGAAAAAUGGCAAUAUACCAUUGAUGAAAGUAAGCUGCCUGCUU---GUUCCGCAUAAAAAAG
----((((.(((((..(((((.(.((((.....((((....(((((.......)))))......)))).)))).).))))---)..))))).))))... ( -29.50)
>DroYak_CAF1 43927 92 - 1
----UUUUUUGUGGGCCAAGCUGUCAGCGAAAAUGCUGAAAAAUGGCAAUAUACCAUUGAUGAAAGUAAGCUGCCUGCUU---GUUCCGCAUAAAAAAG
----((((.(((((..(((((.(.((((.....((((....(((((.......)))))......)))).)))).).))))---)..))))).))))... ( -29.50)
>DroAna_CAF1 36413 92 - 1
----UUUUUUGUGGGUGAAGCUGUCAGCGAAAAUGCUGAAAAAUGGCAAAAUACCAUUGAUGAAAGUAAGCUGCUUGCUCGAACCUCCG---GAAAAAG
----(((((((..(((..(((...((((.....((((....(((((.......)))))......)))).))))...)))...)))..))---))))).. ( -24.40)
>consensus
____UUUUUUGUGGGCCAAGCUGUCAGCGAAAAUGCUGAAAAAUGGCAAAAUACCAUUGAUGAAAGUAAGCUGCCUGCUUGCUGUUCCGCAUAAAAAAG
....((((.(((((..(((((.(.((((.....((((....(((((.......)))))......)))).)))).).))))...)..))))).))))... (-22.34 = -22.28 +  -0.05)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:45:47 2006