Locus 4875

Sequence ID	X_DroMel_CAF1
Location	12,681,324 – 12,681,425
Length	101
Max. P	0.994148

overview

Window 9

Location	12,681,324 – 12,681,425
Length	101
Sequences	5
Columns	101
Reading direction	forward
Mean pairwise identity	96.61
Mean single sequence MFE	-28.32
Consensus MFE	-24.26
Energy contribution	-24.90
Covariance contribution	0.64
Combinations/Pair	1.03
Mean z-score	-2.07
Structure conservation index	0.86
SVM decision value	1.80
SVM RNA-class probability	0.977941
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12681324 101 + 22224390
AUGCAAACGACAAGCCACUUUGACCCAAAGGAGCCGCAAAUGUGCGUUGAUGUGUGCCAUAAAUGUGUCACCAUCAACAGCGGGUUGUCAGUUAAAAUUAA
.....((((((((.((.(((((...)))))..((.(((....)))(((((((.(((.(((....))).)))))))))).)))).))))).)))........ ( -32.10)
>DroSec_CAF1 34670 100 + 1
AUGCAAACGACAAGCCACUUUGACCCAAAGGAGCCGCAAAUGUGCGU-GAUGUGUGCCAUAAAUGUGUCACCAUCAACAGCGGGUUGUCAGUUGAAAUUAA
...(((..(((((.((.(((((...)))))..((((((....))))(-((((.(((.(((....))).))))))))...)))).)))))..)))....... ( -29.80)
>DroSim_CAF1 17008 100 + 1
AUGCAAACGACAAGCCACUUUGACCCAAAGGAGCCGCAAAUGUGCGU-GAUGUGUGCCAUAAAUGUGUCACCAUCAACAGCGGGUUGUCAGUUGAAAUUAA
...(((..(((((.((.(((((...)))))..((((((....))))(-((((.(((.(((....))).))))))))...)))).)))))..)))....... ( -29.80)
>DroEre_CAF1 33880 100 + 1
AUGCAAACACCAAGCUACUUUGACCCAAAGGAGCCGCAAAUGUGCGU-GAUGUGUACCAUAAAUGUGUCACCAUCAACAGCGGGCUGCCAGUUAAAAUUAA
..(((........(((.(((((...))))).))).((...(((...(-((((.((..(((....)))..)))))))...))).)))))............. ( -21.10)
>DroYak_CAF1 37858 100 + 1
AUGCAAACGACAAGCCACUUUGACCCAAAGGAGCCGCAAAUGUGCGU-GAUGUGUGCCAUAAAUGUGUCACCAUCAACAGCGGGUUGUCAGUUAAAAUUAA
.....((((((((.((.(((((...)))))..((((((....))))(-((((.(((.(((....))).))))))))...)))).))))).)))........ ( -28.80)
>consensus
AUGCAAACGACAAGCCACUUUGACCCAAAGGAGCCGCAAAUGUGCGU_GAUGUGUGCCAUAAAUGUGUCACCAUCAACAGCGGGUUGUCAGUUAAAAUUAA
.....((((((((.((.(((((...)))))..((.(((....)))((.((((.(((.(((....))).))))))).)).)))).))))).)))........ (-24.26 = -24.90 +   0.64)

alignment

secondary structure

dotplot

Window 0

Location	12,681,324 – 12,681,425
Length	101
Sequences	5
Columns	101
Reading direction	reverse
Mean pairwise identity	96.61
Mean single sequence MFE	-29.06
Consensus MFE	-26.86
Energy contribution	-26.54
Covariance contribution	-0.32
Combinations/Pair	1.12
Mean z-score	-1.89
Structure conservation index	0.92
SVM decision value	2.45
SVM RNA-class probability	0.994148
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12681324 101 - 22224390
UUAAUUUUAACUGACAACCCGCUGUUGAUGGUGACACAUUUAUGGCACACAUCAACGCACAUUUGCGGCUCCUUUGGGUCAAAGUGGCUUGUCGUUUGCAU
.......(((.((((((.(((((((((((((((.((......)).))).)))))))(((....)))(((((....)))))..))))).)))))).)))... ( -32.70)
>DroSec_CAF1 34670 100 - 1
UUAAUUUCAACUGACAACCCGCUGUUGAUGGUGACACAUUUAUGGCACACAUC-ACGCACAUUUGCGGCUCCUUUGGGUCAAAGUGGCUUGUCGUUUGCAU
.......(((.((((((.(((((..((((((((.((......)).))).))))-).(((....)))(((((....)))))..))))).)))))).)))... ( -29.50)
>DroSim_CAF1 17008 100 - 1
UUAAUUUCAACUGACAACCCGCUGUUGAUGGUGACACAUUUAUGGCACACAUC-ACGCACAUUUGCGGCUCCUUUGGGUCAAAGUGGCUUGUCGUUUGCAU
.......(((.((((((.(((((..((((((((.((......)).))).))))-).(((....)))(((((....)))))..))))).)))))).)))... ( -29.50)
>DroEre_CAF1 33880 100 - 1
UUAAUUUUAACUGGCAGCCCGCUGUUGAUGGUGACACAUUUAUGGUACACAUC-ACGCACAUUUGCGGCUCCUUUGGGUCAAAGUAGCUUGGUGUUUGCAU
......(((((.(((.....))))))))((....))........(((.(((((-(((((....))))(((.(((((...))))).))).)))))).))).. ( -25.50)
>DroYak_CAF1 37858 100 - 1
UUAAUUUUAACUGACAACCCGCUGUUGAUGGUGACACAUUUAUGGCACACAUC-ACGCACAUUUGCGGCUCCUUUGGGUCAAAGUGGCUUGUCGUUUGCAU
.......(((.((((((.(((((..((((((((.((......)).))).))))-).(((....)))(((((....)))))..))))).)))))).)))... ( -28.10)
>consensus
UUAAUUUUAACUGACAACCCGCUGUUGAUGGUGACACAUUUAUGGCACACAUC_ACGCACAUUUGCGGCUCCUUUGGGUCAAAGUGGCUUGUCGUUUGCAU
.......(((.((((((.(((((((.(((((((.((......)).))).)))).))(((....)))(((((....)))))..))))).)))))).)))... (-26.86 = -26.54 +  -0.32)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:35:08 2006