Locus 1048

Sequence ID	2L_DroMel_CAF1
Location	2,930,122 – 2,930,355
Length	233
Max. P	0.986365

overview

Window 7

Location	2,930,122 – 2,930,236
Length	114
Sequences	5
Columns	116
Reading direction	reverse
Mean pairwise identity	84.82
Mean single sequence MFE	-29.89
Consensus MFE	-22.54
Energy contribution	-22.22
Covariance contribution	-0.32
Combinations/Pair	1.08
Mean z-score	-2.80
Structure conservation index	0.75
SVM decision value	2.04
SVM RNA-class probability	0.986365
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2930122 114 - 22407834
AAAUGCAUUGACCAGGCCCAGAUGCUCCUGCCAAAGGGUUCGCACCACCA--CCACCACUCCCCGCGCCAUUGUAUCCACCACAUACUUAUAUUGUUAUGCGCCUGGUUAACUCAU
..(((..((((((((((.(((((((....((....(((............--.........)))..))....)))))....(((.........)))..)).))))))))))..))) ( -25.60)
>DroSec_CAF1 47895 109 - 1
AAAUGCAUUGACCAGGCCCAGAUGCUCCUGCCAAAGGGUUGCUACCACCA-------GCUCCCCUCGCCAUUGUAUCCACCACAUACUUAUAUUGUUAUGCGCCUGGUUAACUCAU
..(((..((((((((((.(((((((....((...((((..(((......)-------))..)))).))....)))))....(((.........)))..)).))))))))))..))) ( -32.80)
>DroSim_CAF1 49494 103 - 1
AAAUGCAUUGACCAGGCCCAGAUGCUCCUGCCAAAGGGUUGCUACUC-------------CUUCUCGCCAUUGUAUCCACCACAUACUUAUAUUGUUAUGCGCCUGGUUAACUCAU
..(((..((((((((((.(((((((....((..((((((....)).)-------------)))...))....)))))....(((.........)))..)).))))))))))..))) ( -27.40)
>DroEre_CAF1 49516 116 - 1
AAAUGCAUUGACCAGGCCCAGAUGCUCCUGCCAAAGGGUUCCCACCCAAACGUCCCUUGUUGCUGAAGCAUUGUAUCCACCACAUACUUAUAUUGUUAUGCGCCUGGUUAACUCGU
..(((..((((((((((.((((((((.(.((..(((((...............)))))...)).).))))))((((.......))))...........)).))))))))))..))) ( -32.76)
>DroYak_CAF1 49447 111 - 1
AAAUGCAUUGACCAGGUCCAGAUGCUCCUGCCAAAGGGUUGCCCCUC-----CCCCCUGUUGCUGCAGCAUUGUAUCCACCACAUACUUAUAUUGUUAUGCGCCUGGUUAACUCAU
..(((..((((((((((.((((((((.(.((...((((.........-----..))))...)).).))))))((((.......))))...........)).))))))))))..))) ( -30.90)
>consensus
AAAUGCAUUGACCAGGCCCAGAUGCUCCUGCCAAAGGGUUGCCACCC__A___C_C_UCUCCCCGCGCCAUUGUAUCCACCACAUACUUAUAUUGUUAUGCGCCUGGUUAACUCAU
..(((..((((((((((.((...((((((.....))))..................................((((.......)))).......))..)).))))))))))..))) (-22.54 = -22.22 +  -0.32)

alignment

secondary structure

dotplot

Window 8

Location	2,930,236 – 2,930,355
Length	119
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	90.55
Mean single sequence MFE	-36.56
Consensus MFE	-27.78
Energy contribution	-27.66
Covariance contribution	-0.12
Combinations/Pair	1.17
Mean z-score	-2.23
Structure conservation index	0.76
SVM decision value	1.05
SVM RNA-class probability	0.907546
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2930236 119 + 22407834
CCCGGCUCCACUUGAUUGUAUUGUCAUUGUCAGGACUUUUGAGUAGUUGACCAUGAUGGUGGAGC-CACGUAAUUCACACUACUUGAAAAGGGGUUGAUGAUAUUCUAAGUGGAGAACCA
...(((((((((((...((((..(((...((....(((((((((((((((..(((.(((.....)-)))))...))).))))))).))))).)).)))..))))..)))))))))..)). ( -37.70)
>DroSec_CAF1 48004 119 + 1
CCCGGCUCCACUUGAUUGUAUUGUCAUUGUCAGGACUUUUGAGUAGUUGACCAUGAUGGUGGAGC-CACGUAAUUCACACUACUUGAAAAGGAGUUGAUGAUAUUCUAAGUGGACAACCA
...((.((((((((...((((..(((...((.....(((..(((((((((..(((.(((.....)-)))))...))).))))))..)))..))..)))..))))..))))))))...)). ( -35.50)
>DroSim_CAF1 49597 119 + 1
CCCGGCUCCACUUGAUUGUAUUGUCAUUGUCAGGACUUUUGAGUAGUUGACCAUGAUGGUGGAGC-CACGUAAUUCACACUACUUGAAAAGGGGUUGAUGAUAUUCUAAGUGGAGAACCA
...(((((((((((...((((..(((...((....(((((((((((((((..(((.(((.....)-)))))...))).))))))).))))).)).)))..))))..)))))))))..)). ( -37.70)
>DroEre_CAF1 49632 119 + 1
CCCGGCUCCACUUGAUUGUAUUGUCAUUGUCAGGACUUUUGAGUAGUUGACCAUGCUCAAGGACUGUGGGUAAUUUACACUACUUGAA-AGGGCUUGAUGAUAUUCCAAGUGGAGAAUCA
.....(((((((((...((((..(((..(((....((((..((((((......((((((.......))))))......))))))..))-))))).)))..))))..)))))))))..... ( -41.60)
>DroYak_CAF1 49558 119 + 1
CCCGGCUCCACUUGAUUGUAUUGUCAUUGUCAGGACUUUUGAGUAGUUGACCAUGCUCAAGCACUGUGGGUAAUUUACACUACUUCAA-AGGGGUUGAUGAUAUUCCAAAAGGAAAACCA
..(((((((.((((((.((......)).))))))...((((((((((......((((((.......))))))......))))).))))-))))))))......((((....))))..... ( -30.30)
>consensus
CCCGGCUCCACUUGAUUGUAUUGUCAUUGUCAGGACUUUUGAGUAGUUGACCAUGAUGGUGGAGC_CACGUAAUUCACACUACUUGAAAAGGGGUUGAUGAUAUUCUAAGUGGAGAACCA
...(((((((((((...((((..(((...((......((..(((((((((((((....)))).(....).....))).))))))..))...))..)))..))))..)))))))))..)). (-27.78 = -27.66 +  -0.12)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:52:02 2006