Locus 7915

Sequence ID	X_DroMel_CAF1
Location	19,706,035 – 19,706,129
Length	94
Max. P	0.899942

overview

Window 9

Location	19,706,035 – 19,706,129
Length	94
Sequences	6
Columns	106
Reading direction	forward
Mean pairwise identity	81.79
Mean single sequence MFE	-43.37
Consensus MFE	-31.52
Energy contribution	-31.11
Covariance contribution	-0.41
Combinations/Pair	1.24
Mean z-score	-2.59
Structure conservation index	0.73
SVM decision value	1.01
SVM RNA-class probability	0.899942
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19706035 94 + 22224390
CACUACCAGCAGGCGGCCGAAUACCACGGCGGACCACCACCGCCA------CCGCAUCACUAUGGCGGUCCGCCACCGCAGGGCCACUAUGGAC------CGCCGC
........((.(((((...........(((((.......))))).------........((((((.(((((((....)).))))).)))))).)------)))))) ( -37.70)
>DroVir_CAF1 297 94 + 1
CAUUACCAGCAGGCGGCAGAGUAUCAUGGUGGUCCGCCACCGC------CGCCUCAUCAUUAUGGUGGACCGCCGCCGCAGGCCCAUUACGGUC------CGCCGC
........(((((((((.(.....)..(((((....)))))))------))))).........(((((((((..(((...)))......)))))------)))))) ( -43.00)
>DroGri_CAF1 306 100 + 1
CAUUAUCAGCAGGCGGCCGAGUAUCAUGGCGGUCCGCCGCCGCCACCGCCGCCCCAUCACUAUGGCGGACCACCGCCACAGGGACACUAUGGCC------CGCCGC
........((.(((((((((((.((.(((((((.....)))))))..............((.((((((....)))))).)).)).))).))).)------)))))) ( -42.50)
>DroSec_CAF1 2707 94 + 1
CACUACCAGCAGGCGGCCGAGUACCACGGCGGACCUCCCCCGCCA------CCGCAUCAUUACGGCGGUCCGCCGCCCCAGGGCCACUACGGAC------CGCCGC
........((.(((((((((((.....((((((((......(((.------............)))))))))))(((....))).))).))).)------)))))) ( -43.12)
>DroYak_CAF1 286 94 + 1
CACUACCAGCAGGCGGCCGAGUAUCACGGCGGACCGCCCCCGCCA------CCGCAUCACUACGGCGGUCCGCCGCCCCAGGGCCACUAUGGAC------CGCCGC
........((.(((((((((((.....(((((((((((.......------............)))))))))))(((....))).))).))).)------)))))) ( -46.81)
>DroMoj_CAF1 297 103 + 1
CACUACCAGCAGGCGGCCGAGUAUCAUGGCGGUCCGCCACCGC---CGCCGCCUCAUCACUACGGCGGACCGCCGCCCCAGGGGCAUUACGGUCCAUUGCCGCCGC
........((.((((((..........((((((.....)))))---)((((...........))))((((((..((((...))))....))))))...)))))))) ( -47.10)
>consensus
CACUACCAGCAGGCGGCCGAGUAUCACGGCGGACCGCCACCGCCA______CCGCAUCACUACGGCGGACCGCCGCCCCAGGGCCACUACGGAC______CGCCGC
............(((((.........((((((((((((.........................))))))))))))((..((.....))..)).........))))) (-31.52 = -31.11 +  -0.41)

alignment

secondary structure

dotplot

Window 0

Location	19,706,035 – 19,706,129
Length	94
Sequences	6
Columns	106
Reading direction	reverse
Mean pairwise identity	81.79
Mean single sequence MFE	-51.28
Consensus MFE	-33.56
Energy contribution	-33.56
Covariance contribution	0.00
Combinations/Pair	1.18
Mean z-score	-1.91
Structure conservation index	0.65
SVM decision value	0.33
SVM RNA-class probability	0.692219
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19706035 94 - 22224390
GCGGCG------GUCCAUAGUGGCCCUGCGGUGGCGGACCGCCAUAGUGAUGCGG------UGGCGGUGGUGGUCCGCCGUGGUAUUCGGCCGCCUGCUGGUAGUG
.(((((------(......((((((.(((.(((((((((((((((.((.((...)------).)).))))))))))))))).)))...))))))))))))...... ( -50.60)
>DroVir_CAF1 297 94 - 1
GCGGCG------GACCGUAAUGGGCCUGCGGCGGCGGUCCACCAUAAUGAUGAGGCG------GCGGUGGCGGACCACCAUGAUACUCUGCCGCCUGCUGGUAAUG
.(((((------((((((.....(((...))).)))))))............(((((------(((((((....)))))..(.....).)))))))))))...... ( -42.70)
>DroGri_CAF1 306 100 - 1
GCGGCG------GGCCAUAGUGUCCCUGUGGCGGUGGUCCGCCAUAGUGAUGGGGCGGCGGUGGCGGCGGCGGACCGCCAUGAUACUCGGCCGCCUGCUGAUAAUG
((((((------((((((((.....)))))))(((((((((((.((....))..((.((....)).)))))))))))))...........))))).))........ ( -54.30)
>DroSec_CAF1 2707 94 - 1
GCGGCG------GUCCGUAGUGGCCCUGGGGCGGCGGACCGCCGUAAUGAUGCGG------UGGCGGGGGAGGUCCGCCGUGGUACUCGGCCGCCUGCUGGUAGUG
((((((------((((((....(((....))).))))))))))))......((((------.((((((.....))))))(((((.....)))))))))........ ( -51.90)
>DroYak_CAF1 286 94 - 1
GCGGCG------GUCCAUAGUGGCCCUGGGGCGGCGGACCGCCGUAGUGAUGCGG------UGGCGGGGGCGGUCCGCCGUGAUACUCGGCCGCCUGCUGGUAGUG
((((((------(((...(((((((....)))((((((((((((((....)))))------).((....))))))))))....)))).))))))).))........ ( -53.20)
>DroMoj_CAF1 297 103 - 1
GCGGCGGCAAUGGACCGUAAUGCCCCUGGGGCGGCGGUCCGCCGUAGUGAUGAGGCGGCG---GCGGUGGCGGACCGCCAUGAUACUCGGCCGCCUGCUGGUAGUG
((((((((...(((((((...((((...)))).)))))))(((((.........)))))(---(((((.....))))))..........)))))).))........ ( -55.00)
>consensus
GCGGCG______GUCCAUAGUGGCCCUGGGGCGGCGGACCGCCAUAGUGAUGCGG______UGGCGGUGGCGGACCGCCAUGAUACUCGGCCGCCUGCUGGUAGUG
(((((.......(.((.(((.....))).)))(((((((((((.........................)))))))))))..........)))))............ (-33.56 = -33.56 +   0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:50:46 2006