Locus 4172

Sequence ID	X_DroMel_CAF1
Location	10,948,880 – 10,948,979
Length	99
Max. P	0.893760

overview

Window 5

Location	10,948,880 – 10,948,979
Length	99
Sequences	4
Columns	100
Reading direction	forward
Mean pairwise identity	82.53
Mean single sequence MFE	-29.70
Consensus MFE	-18.61
Energy contribution	-19.18
Covariance contribution	0.56
Combinations/Pair	1.05
Mean z-score	-2.34
Structure conservation index	0.63
SVM decision value	0.98
SVM RNA-class probability	0.893760
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10948880 99 + 22224390
AAACCAUGGCCCACUAUCAGGUCCACGUACUGAUUUCGUUUCGUGUGCCGAUUUGAC-GAUUUCCCGAUCCCGAUAACGAUACGGACGAUGGGCCAUGGC
...((((((((((...(((((((...(((((((.......))).)))).))))))).-......((((((........))).)))....)))))))))). ( -35.10)
>DroSec_CAF1 6934 100 + 1
AAACCAUGGCAUACUAUCAGGUCCACGUACUGAUUUCGUUGCGUAUGCCGAUUUGACUGAUUUCCCGAUCCCGAUAACGAUACGGACGAUGGGCCAUGGC
...(((((((...(((((.(((..(((((.((....)).)))))..)))...............((((((........))).)))..)))))))))))). ( -31.00)
>DroEre_CAF1 6811 80 + 1
AAACCAUGGCG---UAUCAGGCCCACGUACUGAUUUCGUUUCGUAUGCCGA---------UUCCGCGAUCCCGAUAACGAUACGG--------CCAUGGC
...((((((((---((((.(((..(((...((....))...)))..)))((---------((....))))........))))).)--------)))))). ( -26.60)
>DroYak_CAF1 7432 80 + 1
AAACCAUGGCC---UAUCAGGUCCACGUACUGAUUUCGUUUCGUAUGCCGA---------UUCCCCGAUCCCGAUAACGAUACGG--------CCAUGGC
...((((((((---((((.(((..(((...((....))...)))..)))((---------((....))))........)))).))--------)))))). ( -26.10)
>consensus
AAACCAUGGCC___UAUCAGGUCCACGUACUGAUUUCGUUUCGUAUGCCGA_________UUCCCCGAUCCCGAUAACGAUACGG________CCAUGGC
...(((((((.........(((..(((...((....))...)))..)))...............((((((........))).))).......))))))). (-18.61 = -19.18 +   0.56)

alignment

secondary structure

dotplot

Window 6

Location	10,948,880 – 10,948,979
Length	99
Sequences	4
Columns	100
Reading direction	reverse
Mean pairwise identity	82.53
Mean single sequence MFE	-31.73
Consensus MFE	-20.74
Energy contribution	-21.30
Covariance contribution	0.56
Combinations/Pair	1.04
Mean z-score	-2.15
Structure conservation index	0.65
SVM decision value	0.86
SVM RNA-class probability	0.867504
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10948880 99 - 22224390
GCCAUGGCCCAUCGUCCGUAUCGUUAUCGGGAUCGGGAAAUC-GUCAAAUCGGCACACGAAACGAAAUCAGUACGUGGACCUGAUAGUGGGCCAUGGUUU
((((((((((((..((((((....)).))))((((((.....-(((.....))).((((..((.......)).))))..)))))).)))))))))))).. ( -39.30)
>DroSec_CAF1 6934 100 - 1
GCCAUGGCCCAUCGUCCGUAUCGUUAUCGGGAUCGGGAAAUCAGUCAAAUCGGCAUACGCAACGAAAUCAGUACGUGGACCUGAUAGUAUGCCAUGGUUU
((((((((......((((((....)).))))((((((......(((.....))).((((..((.......)).))))..)))))).....)))))))).. ( -28.00)
>DroEre_CAF1 6811 80 - 1
GCCAUGG--------CCGUAUCGUUAUCGGGAUCGCGGAA---------UCGGCAUACGAAACGAAAUCAGUACGUGGGCCUGAUA---CGCCAUGGUUU
(((((((--------(.((((((....)(((..((((...---------(((.....))).((.......)).))))..)))))))---))))))))).. ( -29.50)
>DroYak_CAF1 7432 80 - 1
GCCAUGG--------CCGUAUCGUUAUCGGGAUCGGGGAA---------UCGGCAUACGAAACGAAAUCAGUACGUGGACCUGAUA---GGCCAUGGUUU
(((((((--------((...(((((.(((.(.((((....---------)))))...)))))))).(((((.........))))).---))))))))).. ( -30.10)
>consensus
GCCAUGG________CCGUAUCGUUAUCGGGAUCGGGAAA_________UCGGCAUACGAAACGAAAUCAGUACGUGGACCUGAUA___GGCCAUGGUUU
((((((((.......(((..(((....)))...))).............((((..((((..((.......)).))))...))))......)))))))).. (-20.74 = -21.30 +   0.56)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:18:05 2006