Locus 3371

Sequence ID	3L_DroMel_CAF1
Location	9,850,935 – 9,851,040
Length	105
Max. P	0.940272

overview

Window 8

Location	9,850,935 – 9,851,040
Length	105
Sequences	5
Columns	105
Reading direction	forward
Mean pairwise identity	89.45
Mean single sequence MFE	-28.76
Consensus MFE	-22.56
Energy contribution	-23.72
Covariance contribution	1.16
Combinations/Pair	1.10
Mean z-score	-2.08
Structure conservation index	0.78
SVM decision value	1.18
SVM RNA-class probability	0.927290
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9850935 105 + 23771897
CACCGACUUGACUCCGUCCGUCAGCCGCAGUCAGGAGUUCGCAAUAAGUGAUGCUGCCAGCAGCAGCUAACUCCAACUCCUAACUCCUAACUCUUAACUGUAGCU
....(((..(((...))).)))(((..((((.((((((((((.....)))).(((((.....)))))......................)))))).))))..))) ( -30.00)
>DroSec_CAF1 11845 105 + 1
CACCGACUUGACUCCGUCCGUCAGCCGCAGUCAGGAGUUCGCAAUAAGUGAUUCUGCCAGCAGCGGCUAACUCCAACUCCUAACUCCUAACUCUUAACUGUAGCU
....(((..(((...))).)))(((..((((.((((((((((.....))))....(((......)))......................)))))).))))..))) ( -26.40)
>DroSim_CAF1 11705 105 + 1
CACCGACUUGACUCCGUCCGUCAGCCGCAGUCAGGAGUUCGCAAUAAGUGAUGCUGCCAGCAGCGGCUAAAUCCAACUCCUAACUCCUAACUCUUAACUGUAGCU
....(((..(((...))).)))(((..((((.((((((((((.....)))).(((((.....)))))......................)))))).))))..))) ( -29.30)
>DroEre_CAF1 12592 91 + 1
CACCGACUUGACUCCGUCCGUCAGUCGAAGUCAGGAGUUCGCAAUAAGUGAUGCUGCCAGCAGCGGCUAACUUUAACU--------------CCUAACUGUAGCU
...(((((.(((.......)))))))).(((.(((((((......((((...(((((.....)))))..)))).))))--------------))).)))...... ( -29.30)
>DroYak_CAF1 12814 98 + 1
CACCGACUUGACUCCGUCCGUCAGUCGAAGUCAGGAGUUCGCAAUAAGUGAUGCUGCCAGCAGCGGCUAACUCUAACUCCUAACU-------CCUAACUGUAGCU
...(((((.(((.......)))))))).(((.((((((((((.....)))).(((((.....)))))...............)))-------))).)))...... ( -28.80)
>consensus
CACCGACUUGACUCCGUCCGUCAGCCGCAGUCAGGAGUUCGCAAUAAGUGAUGCUGCCAGCAGCGGCUAACUCCAACUCCUAACUCCUAACUCUUAACUGUAGCU
....(((..(((...))).)))(((.(((((.((((((((((.....)))).(((((.....)))))......................)))))).))))).))) (-22.56 = -23.72 +   1.16)

alignment

secondary structure

dotplot

Window 9

Location	9,850,935 – 9,851,040
Length	105
Sequences	5
Columns	105
Reading direction	reverse
Mean pairwise identity	89.45
Mean single sequence MFE	-37.12
Consensus MFE	-28.40
Energy contribution	-29.96
Covariance contribution	1.56
Combinations/Pair	1.04
Mean z-score	-2.32
Structure conservation index	0.77
SVM decision value	1.31
SVM RNA-class probability	0.940272
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9850935 105 - 23771897
AGCUACAGUUAAGAGUUAGGAGUUAGGAGUUGGAGUUAGCUGCUGCUGGCAGCAUCACUUAUUGCGAACUCCUGACUGCGGCUGACGGACGGAGUCAAGUCGGUG
.....(((((...(((((((((((....((..((((..(((((.....)))))...))))...)).)))))))))))..)))))((.(((........))).)). ( -38.70)
>DroSec_CAF1 11845 105 - 1
AGCUACAGUUAAGAGUUAGGAGUUAGGAGUUGGAGUUAGCCGCUGCUGGCAGAAUCACUUAUUGCGAACUCCUGACUGCGGCUGACGGACGGAGUCAAGUCGGUG
(((..((((((.(((((.(.(((.((..(((...((((((....))))))..)))..)).))).).))))).))))))..))).((.(((........))).)). ( -34.40)
>DroSim_CAF1 11705 105 - 1
AGCUACAGUUAAGAGUUAGGAGUUAGGAGUUGGAUUUAGCCGCUGCUGGCAGCAUCACUUAUUGCGAACUCCUGACUGCGGCUGACGGACGGAGUCAAGUCGGUG
(((..((((((.(((((....(((((.(((.((......))))).))))).(((........))).))))).))))))..))).((.(((........))).)). ( -37.20)
>DroEre_CAF1 12592 91 - 1
AGCUACAGUUAGG--------------AGUUAAAGUUAGCCGCUGCUGGCAGCAUCACUUAUUGCGAACUCCUGACUUCGACUGACGGACGGAGUCAAGUCGGUG
......(((((((--------------((((...((((((....)))))).(((........))).)))))))))))(((((((((.......))).)))))).. ( -35.10)
>DroYak_CAF1 12814 98 - 1
AGCUACAGUUAGG-------AGUUAGGAGUUAGAGUUAGCCGCUGCUGGCAGCAUCACUUAUUGCGAACUCCUGACUUCGACUGACGGACGGAGUCAAGUCGGUG
.....(((((.((-------(((((((((((...((((((....)))))).(((........))).))))))))))))))))))((.(((........))).)). ( -40.20)
>consensus
AGCUACAGUUAAGAGUUAGGAGUUAGGAGUUGGAGUUAGCCGCUGCUGGCAGCAUCACUUAUUGCGAACUCCUGACUGCGGCUGACGGACGGAGUCAAGUCGGUG
....................(((((((((((...((((((....)))))).(((........))).))))))))))).((((((((.......))).)))))... (-28.40 = -29.96 +   1.56)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:56:29 2006