Locus 7410

Sequence ID	X_DroMel_CAF1
Location	18,485,974 – 18,486,113
Length	139
Max. P	0.999293

overview

Window 8

Location	18,485,974 – 18,486,085
Length	111
Sequences	6
Columns	117
Reading direction	forward
Mean pairwise identity	83.24
Mean single sequence MFE	-46.93
Consensus MFE	-31.74
Energy contribution	-34.18
Covariance contribution	2.45
Combinations/Pair	1.14
Mean z-score	-1.70
Structure conservation index	0.68
SVM decision value	-0.05
SVM RNA-class probability	0.506735
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18485974 111 + 22224390
UGGCCACAGGCAGGGUGAGAUGAGUGGCGGCGAUGCUGCCAAUGUGGUUGG------AGACAUGAGUUUGGGCAGUCGUCGCGCUGGCCAGGCUGGCGGCUGCUGCGGCCGUUGUGG
.((((.((..((........))..))((((((..((((((........((.------...))..(((((((.((((......)))).)))))))))))))))))))))))....... ( -48.80)
>DroSec_CAF1 3822 111 + 1
UGGCCACAGGCAGGGUGAGAUGAGUGGCGGCGAUGCUGCCAAUGUGGUUGG------AGACAUGAGUUUGGGCAGUCGUGGCACUGGCCAGGCUGGCGGCUGCUGCGGCCGUUGUGG
.((((.((..((........))..))((((((..((((((........((.------...))..(((((((.((((......)))).)))))))))))))))))))))))....... ( -48.50)
>DroSim_CAF1 3801 111 + 1
UGGCCACAGGCAGGGUGAGAUGAGUGGCGGCGAUGCUGCCAAUGUGGUUGG------AGACAUGAGUUUGGGCAGUCGUGGCACUGACCAGGCUGGCGGCUGCUGCGGCCGUUGUGG
.((((.((..((........))..))((((((..(((((((.(.((((..(------.(.(((((.(......).))))).).)..)))).).)))))))))))))))))....... ( -47.80)
>DroEre_CAF1 4305 111 + 1
UGGCCACAGGCAGGGUGAGAUGUGUGGCGGCGAUGCUGCCAAUGUGGUUGG------AGACAUGAGUUUGGGCAGUGGUGGCGGCGGCCAAGCUGGCGGCGACUGCGGCCGUUGUGG
.((((.(((((.............(((((((...))))))).......((.------...))...))))).(((((.((.(((((......))).)).)).)))))))))....... ( -45.90)
>DroYak_CAF1 3745 111 + 1
UUGCCACAGGCAGGGUGAGAUGUGUGGCGGCGAUGCUGCCAAUGUGGUUGG------AGACCUGAGUUUGGGCAGUUGUGGCGCUGGCCAGGCUGGCGGCGGCUGCGGCCGUUGUGG
...(((((((((.(......).)))(((.(((.(((((((.....((((..------.))))..(((((((.((((......)))).))))))))))))))..))).))).)))))) ( -49.10)
>DroAna_CAF1 3909 102 + 1
CCGCCACCGGCAGUGUGAGAUGUGUGGUGGUUAU---------GUGGUUGCUUGCUUGGGCUUGUGUUUGAGCAGGUGAGACAGUGGCCAGGCCGGCGGCAAC---GGCUGUAG---
..(((.(((((.(..(.....)..)..(((((((---------....(..((((((..(((....)))..))))))..)....))))))).))))).)))...---........--- ( -41.50)
>consensus
UGGCCACAGGCAGGGUGAGAUGAGUGGCGGCGAUGCUGCCAAUGUGGUUGG______AGACAUGAGUUUGGGCAGUCGUGGCACUGGCCAGGCUGGCGGCUGCUGCGGCCGUUGUGG
((((((((..((........))..(((((((...))))))).))))))))........(((...(((((((.((((......)))).)))))))(((.((....)).)))))).... (-31.74 = -34.18 +   2.45)

alignment

secondary structure

dotplot

Window 9

Location	18,486,014 – 18,486,113
Length	99
Sequences	5
Columns	99
Reading direction	forward
Mean pairwise identity	93.03
Mean single sequence MFE	-44.40
Consensus MFE	-42.76
Energy contribution	-42.48
Covariance contribution	-0.28
Combinations/Pair	1.17
Mean z-score	-1.99
Structure conservation index	0.96
SVM decision value	3.49
SVM RNA-class probability	0.999293
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18486014 99 + 22224390
AAUGUGGUUGGAGACAUGAGUUUGGGCAGUCGUCGCGCUGGCCAGGCUGGCGGCUGCUGCGGCCGUUGUGGCGGACGAAGAUGAGGCUGCCGCGGCAGU
.....(((((.((((....)))).(((((((((((.(((.....)))))))))))))).)))))((((((((((.(........).))))))))))... ( -44.70)
>DroSec_CAF1 3862 99 + 1
AAUGUGGUUGGAGACAUGAGUUUGGGCAGUCGUGGCACUGGCCAGGCUGGCGGCUGCUGCGGCCGUUGUGGCGGACGAAGAUGAGGCCGCCGCGGCAGU
........((....))..(((((((.((((......)))).)))))))(((.((....)).)))((((((((((.(........).))))))))))... ( -45.60)
>DroSim_CAF1 3841 99 + 1
AAUGUGGUUGGAGACAUGAGUUUGGGCAGUCGUGGCACUGACCAGGCUGGCGGCUGCUGCGGCCGUUGUGGCGGACGAAGAUGAGGCCGCCGCGGCAGU
.....(((((.((((....)))).((((((((((((.((....))))).))))))))).)))))((((((((((.(........).))))))))))... ( -43.60)
>DroEre_CAF1 4345 99 + 1
AAUGUGGUUGGAGACAUGAGUUUGGGCAGUGGUGGCGGCGGCCAAGCUGGCGGCGACUGCGGCCGUUGUGGCGGACGAAGAGGAGGCCGCCGCAGCAGU
.....(((((....)..........(((((.((.(((((......))).)).)).)))))))))((((((((((.(........).))))))))))... ( -44.40)
>DroYak_CAF1 3785 99 + 1
AAUGUGGUUGGAGACCUGAGUUUGGGCAGUUGUGGCGCUGGCCAGGCUGGCGGCGGCUGCGGCCGUUGUGGCGGACGAGGAGGAGGCCGUCGCGGCAGU
.....(((((.((.(((.(((((((.((((......)))).))))))).).))...)).)))))((((((((((.(........).))))))))))... ( -43.70)
>consensus
AAUGUGGUUGGAGACAUGAGUUUGGGCAGUCGUGGCGCUGGCCAGGCUGGCGGCUGCUGCGGCCGUUGUGGCGGACGAAGAUGAGGCCGCCGCGGCAGU
........((....))..(((((((.((((......)))).)))))))(((.((....)).)))((((((((((.(........).))))))))))... (-42.76 = -42.48 +  -0.28)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:38:13 2006