Locus 7325

Sequence ID	3L_DroMel_CAF1
Location	19,627,539 – 19,627,638
Length	99
Max. P	0.998779

overview

Window 0

Location	19,627,539 – 19,627,638
Length	99
Sequences	5
Columns	100
Reading direction	forward
Mean pairwise identity	87.12
Mean single sequence MFE	-47.44
Consensus MFE	-36.68
Energy contribution	-39.36
Covariance contribution	2.68
Combinations/Pair	1.09
Mean z-score	-4.28
Structure conservation index	0.77
SVM decision value	3.22
SVM RNA-class probability	0.998779
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19627539 99 + 23771897
UCUGCUCUGUGGGAUCGGUAUUGGGACUGGAAUCGGAAUCGGGCCAGUAGUUAACUGCGGCCCGCUUCCACUUCCACU-CCAUCAGGCCCGACUCGCAGU
......(((((((.((((..((((((.(((((..((((.((((((.((((....)))))))))).))))..))))).)-))..)))..))))))))))). ( -50.40)
>DroSec_CAF1 42284 100 + 1
UCUGCUCUGUGGGAUCGGGAUUGGGAUUGGGAUCGGAAUCGGGCCAGUAGUUAACUGCGGCCCGCUUCCACUUCCACUUCCAUCAGGCCCGACUCGCAGU
......(((((((.(((((..(((((.(((((..((((.((((((.((((....)))))))))).))))..))))).))))).....)))))))))))). ( -53.90)
>DroSim_CAF1 44459 100 + 1
UCUGCUCUGUGUGAUCGGGAUUGGGAUUGGGAUCGGAAUCGGGCCAGUAGUUAACUGCGGCCCGCUUCCACUUCCACUUCCAUCAGGCCCGACUCGCAGU
......(((((.(.(((((..(((((.(((((..((((.((((((.((((....)))))))))).))))..))))).))))).....)))))).))))). ( -50.60)
>DroEre_CAF1 42755 94 + 1
GUUAGGCAUAGGGAUCGG------GAUCGGGAUCGGGAUCCGGCCAGUAGUUAACUGCAGCCCGCUUCCACUUCCACUUCCAUCAGGCCCGACUCGCAGU
((..(((....(((...(------((..((((.((((.....((.(((.....)))))..)))).))))...)))...))).....)))..))....... ( -31.90)
>DroYak_CAF1 42552 94 + 1
GCUGCUCUGUGAGAUCGG------GAUAGGGAUUGGGAUCGGGCCUGUAGUUAACUGCGGCCCGAUUCCACUUCCACUUCCAUCAGGCCCGACUCGGAGU
...(((((..(((.((((------(...((((.((((((((((((.((((....)))))))))))))))).))))....((....))))))))))))))) ( -50.40)
>consensus
UCUGCUCUGUGGGAUCGG_AUUGGGAUUGGGAUCGGAAUCGGGCCAGUAGUUAACUGCGGCCCGCUUCCACUUCCACUUCCAUCAGGCCCGACUCGCAGU
......(((((((.((((...(((((.(((((..((((.((((((.((((....)))))))))).))))..))))).)))))......))))))))))). (-36.68 = -39.36 +   2.68)

alignment

secondary structure

dotplot

Window 1

Location	19,627,539 – 19,627,638
Length	99
Sequences	5
Columns	100
Reading direction	reverse
Mean pairwise identity	87.12
Mean single sequence MFE	-37.42
Consensus MFE	-26.70
Energy contribution	-27.42
Covariance contribution	0.72
Combinations/Pair	1.10
Mean z-score	-1.89
Structure conservation index	0.71
SVM decision value	0.31
SVM RNA-class probability	0.680905
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19627539 99 - 23771897
ACUGCGAGUCGGGCCUGAUGG-AGUGGAAGUGGAAGCGGGCCGCAGUUAACUACUGGCCCGAUUCCGAUUCCAGUCCCAAUACCGAUCCCACAGAGCAGA
.((((..(((((...((..((-(.(((((.(((((.((((((..(((.....))))))))).))))).))))).)))))...)))))........)))). ( -43.20)
>DroSec_CAF1 42284 100 - 1
ACUGCGAGUCGGGCCUGAUGGAAGUGGAAGUGGAAGCGGGCCGCAGUUAACUACUGGCCCGAUUCCGAUCCCAAUCCCAAUCCCGAUCCCACAGAGCAGA
.((((..((((((..((..(((..(((...(((((.((((((..(((.....))))))))).)))))...))).)))))..))))))........)))). ( -39.60)
>DroSim_CAF1 44459 100 - 1
ACUGCGAGUCGGGCCUGAUGGAAGUGGAAGUGGAAGCGGGCCGCAGUUAACUACUGGCCCGAUUCCGAUCCCAAUCCCAAUCCCGAUCACACAGAGCAGA
.((((...(((((..((..(((..(((...(((((.((((((..(((.....))))))))).)))))...))).)))))..)))))((.....)))))). ( -39.80)
>DroEre_CAF1 42755 94 - 1
ACUGCGAGUCGGGCCUGAUGGAAGUGGAAGUGGAAGCGGGCUGCAGUUAACUACUGGCCGGAUCCCGAUCCCGAUC------CCGAUCCCUAUGCCUAAC
.......((..(((.....(((.(.(((.(.(((..(((((((((((.....))))..)))..)))).))))..))------))..)))....)))..)) ( -25.90)
>DroYak_CAF1 42552 94 - 1
ACUCCGAGUCGGGCCUGAUGGAAGUGGAAGUGGAAUCGGGCCGCAGUUAACUACAGGCCCGAUCCCAAUCCCUAUC------CCGAUCUCACAGAGCAGC
.(((.((((((((((....)).((.(((..(((.((((((((..((....))...)))))))).))).)))))..)------)))).)))...))).... ( -38.60)
>consensus
ACUGCGAGUCGGGCCUGAUGGAAGUGGAAGUGGAAGCGGGCCGCAGUUAACUACUGGCCCGAUUCCGAUCCCAAUCCCAAU_CCGAUCCCACAGAGCAGA
.(((.(.(((((.((....))..(.(((..(((((.(((((((.((....)).).)))))).))))).))))..........)))))..).)))...... (-26.70 = -27.42 +   0.72)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:44:03 2006