Locus 4024

Sequence ID	2L_DroMel_CAF1
Location	11,679,230 – 11,679,329
Length	99
Max. P	0.997927

overview

Window 2

Location	11,679,230 – 11,679,329
Length	99
Sequences	5
Columns	99
Reading direction	forward
Mean pairwise identity	92.53
Mean single sequence MFE	-28.68
Consensus MFE	-24.00
Energy contribution	-24.32
Covariance contribution	0.32
Combinations/Pair	1.10
Mean z-score	-2.14
Structure conservation index	0.84
SVM decision value	2.08
SVM RNA-class probability	0.987505
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11679230 99 + 22407834
GAGUGCAAAUUGGGUGAUCAGAAGGCGGUAAAUAAGUCAAUAAUGUGAAAUGUGUGCUAUUGCCACAUUUGCUGAUUGACUCACCGGAGGUGAUUGCAA
...(((((.((.(((((((.......))).....(((((((...((.(((((((.((....)))))))))))..))))))))))).)).....))))). ( -28.10)
>DroSec_CAF1 140368 99 + 1
GAGUGCAAAUUGGGUGAUCAGAAGGCGGUAAAUAAGUCAAUACUGUGAAAUGUGUGCUUUUGCCACAUUUGCUGAUUGACUCACCAGAGGUGAUUGCAA
...(((((....(..((((((...((((((..........)))))).(((((((.((....))))))))).))))))..)(((((...)))))))))). ( -29.10)
>DroSim_CAF1 138246 99 + 1
GAGUGCAAAUUGGGUGAUCAGAAGGCGGUAAAUAAGUCAAUAAUGUGAAAUGUGUGCUAUUGCCACAUUUGCUGAUUGACUCACCGGAGGUGAUUGCAA
...(((((.((.(((((((.......))).....(((((((...((.(((((((.((....)))))))))))..))))))))))).)).....))))). ( -28.10)
>DroEre_CAF1 163654 99 + 1
GAGUGCAAAUUGGGUGAUUGGGAGGCGGAAAAUAAGUCAUUAACAUGGCAUGUGUGCUAUUGCCACAUUUGCUGAUUGACUCACCGGAGGUGAUUGCAA
...(((((.((.((((((..(..((((((......(((((....))))).((((.((....))))))))))))..)..).))))).)).....))))). ( -31.10)
>DroYak_CAF1 136157 99 + 1
GAGUGCAAAUUGGGUAAUCAGGAGGCGGUAAAUAAGUCAUUAACGAGAAAUAUGUGCUAUUGCCACAUUUGCUGAUUGACUCACCGCAGCUGAUUGCAA
.............((((((((...(((((.....((((((((.(((.....((((((....).)))))))).))).))))).)))))..)))))))).. ( -27.00)
>consensus
GAGUGCAAAUUGGGUGAUCAGAAGGCGGUAAAUAAGUCAAUAAUGUGAAAUGUGUGCUAUUGCCACAUUUGCUGAUUGACUCACCGGAGGUGAUUGCAA
...(((((.((.(((((((((..(((((........)).........(((((((.((....))))))))))))..)))).))))).)).....))))). (-24.00 = -24.32 +   0.32)

alignment

secondary structure

dotplot

Window 3

Location	11,679,230 – 11,679,329
Length	99
Sequences	5
Columns	99
Reading direction	reverse
Mean pairwise identity	92.53
Mean single sequence MFE	-23.22
Consensus MFE	-19.08
Energy contribution	-19.92
Covariance contribution	0.84
Combinations/Pair	1.04
Mean z-score	-2.91
Structure conservation index	0.82
SVM decision value	2.96
SVM RNA-class probability	0.997927
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11679230 99 - 22407834
UUGCAAUCACCUCCGGUGAGUCAAUCAGCAAAUGUGGCAAUAGCACACAUUUCACAUUAUUGACUUAUUUACCGCCUUCUGAUCACCCAAUUUGCACUC
.((((((((((...)))))((((((....(((((((((....)).)))))))......))))))...........................)))))... ( -22.60)
>DroSec_CAF1 140368 99 - 1
UUGCAAUCACCUCUGGUGAGUCAAUCAGCAAAUGUGGCAAAAGCACACAUUUCACAGUAUUGACUUAUUUACCGCCUUCUGAUCACCCAAUUUGCACUC
.((((((((((...)))))(((((((...(((((((((....)).)))))))....).))))))...........................)))))... ( -22.70)
>DroSim_CAF1 138246 99 - 1
UUGCAAUCACCUCCGGUGAGUCAAUCAGCAAAUGUGGCAAUAGCACACAUUUCACAUUAUUGACUUAUUUACCGCCUUCUGAUCACCCAAUUUGCACUC
.((((((((((...)))))((((((....(((((((((....)).)))))))......))))))...........................)))))... ( -22.60)
>DroEre_CAF1 163654 99 - 1
UUGCAAUCACCUCCGGUGAGUCAAUCAGCAAAUGUGGCAAUAGCACACAUGCCAUGUUAAUGACUUAUUUUCCGCCUCCCAAUCACCCAAUUUGCACUC
.((((((((((...)))))((((...((((.(((((((....)).)))))....))))..))))...........................)))))... ( -21.60)
>DroYak_CAF1 136157 99 - 1
UUGCAAUCAGCUGCGGUGAGUCAAUCAGCAAAUGUGGCAAUAGCACAUAUUUCUCGUUAAUGACUUAUUUACCGCCUCCUGAUUACCCAAUUUGCACUC
.(((((((((..(((((((((((((.((.(((((((((....)).))))))))).))...))))))....)))))...))))).........))))... ( -26.60)
>consensus
UUGCAAUCACCUCCGGUGAGUCAAUCAGCAAAUGUGGCAAUAGCACACAUUUCACAUUAUUGACUUAUUUACCGCCUUCUGAUCACCCAAUUUGCACUC
.((((((((((...)))))((((((....(((((((((....)).)))))))......))))))...........................)))))... (-19.08 = -19.92 +   0.84)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:07:25 2006