Locus 6831

Sequence ID	X_DroMel_CAF1
Location	16,990,976 – 16,991,075
Length	99
Max. P	0.969243

overview

Window 7

Location	16,990,976 – 16,991,075
Length	99
Sequences	6
Columns	114
Reading direction	forward
Mean pairwise identity	69.35
Mean single sequence MFE	-42.57
Consensus MFE	-16.27
Energy contribution	-16.42
Covariance contribution	0.14
Combinations/Pair	1.37
Mean z-score	-2.30
Structure conservation index	0.38
SVM decision value	1.64
SVM RNA-class probability	0.969243
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16990976 99 + 22224390
AUAGCCAUUAGCUCAGCUUCCCGCUUCUUUGCAGCGGCAAUGGCUACUUGGAGGGCCUGAUGCUUGGCCUCUUCUUGUGCCC---------------GUCGCUGCUGUGUAGCC
..........(((((((.....))).....((((((((.((((.(((..((((((((........)))).))))..))).))---------------)).))))))))).))). ( -39.10)
>DroPse_CAF1 2144 114 + 1
AGAGCCAUAAGUUCGGCCUCACGCUGCUUUGCCGCAGCUAUGGCCUGCUGCAGAGCCAUCAUUCUGGCCUCUUCCUGGGCCCUUUGGGCCUGCUGCUGGCGCUGUUGCUCUGCC
(((((....(((..((((....(((((......)))))...)))).(((((((.((((......))))........((((((...)))))).)))).))))))...)))))... ( -48.20)
>DroEre_CAF1 2069 99 + 1
AUGGCCAUGAGCUCAGCUUCUCGCUUCUUUGCAGCGGCAAUGGCUAUUUGGAGUGCCUGAUGCUUGGCCUCUUCUUGUGCCC---------------GGCGCUGCUGCUCAGCC
..(((..(((((..(((.....))).....((((((.(...(((.....((((.(((........)))))))......))).---------------).)))))).)))))))) ( -38.70)
>DroYak_CAF1 2067 99 + 1
AUAGCCAUGAGUUCAGCUUCCCGCUUCUUCGCAGCGGCAAGUGCUAUUUGCAGGGCCUGAUGCUUGGCCUCUUCUUGUGCCC---------------GUCGCUGCUGCUCGGCC
...(((..((((..(((.....))).....((((((((...(((.....)))(((((........)))))............---------------)))))))).))))))). ( -35.40)
>DroMoj_CAF1 2279 105 + 1
AGCUCCAGCAGCUCCUGCUCACGCUGCUUGGCCGUGGCUAUGGCCUGCUGCAGUGCAGCAAAUUUGGCCUCAUCGGCGGCCUUC---------UGCUGUCGCUGUUGCUCGGCA
....(.((((((..........)))))).)((((.(((....))).((.(((((((((((.....((((........))))...---------))))).)))))).)).)))). ( -45.20)
>DroPer_CAF1 1352 114 + 1
AGAGCCAUAAGUUCGGCCUCACGCUGCUUGGCUGCAGCUAUGGCCUGCUGCAGAGCCAUCAUUCUGGCCUCUUCCUGGGCCCUUUGGGCCUGCUGCUGGCGCUGUUGCUCUGCC
(((((....(((..((((....(((((......)))))...)))).(((((((.((((......))))........((((((...)))))).)))).))))))...)))))... ( -48.80)
>consensus
AGAGCCAUAAGCUCAGCCUCACGCUGCUUUGCAGCGGCAAUGGCCAGCUGCAGAGCCUGAAGCUUGGCCUCUUCUUGGGCCC_______________GGCGCUGCUGCUCAGCC
..........(((.(((.....((......)).(((((...(((..........)))........(((..........)))...................))))).))).))). (-16.27 = -16.42 +   0.14)

alignment

secondary structure

dotplot

Window 8

Location	16,990,976 – 16,991,075
Length	99
Sequences	6
Columns	114
Reading direction	reverse
Mean pairwise identity	69.35
Mean single sequence MFE	-41.07
Consensus MFE	-13.06
Energy contribution	-13.20
Covariance contribution	0.14
Combinations/Pair	1.44
Mean z-score	-2.19
Structure conservation index	0.32
SVM decision value	0.92
SVM RNA-class probability	0.881426
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16990976 99 - 22224390
GGCUACACAGCAGCGAC---------------GGGCACAAGAAGAGGCCAAGCAUCAGGCCCUCCAAGUAGCCAUUGCCGCUGCAAAGAAGCGGGAAGCUGAGCUAAUGGCUAU
(((((.....((((...---------------.(((((..(.((.((((........)))))).)..)).))).((.(((((.......))))).))))))......))))).. ( -34.20)
>DroPse_CAF1 2144 114 - 1
GGCAGAGCAACAGCGCCAGCAGCAGGCCCAAAGGGCCCAGGAAGAGGCCAGAAUGAUGGCUCUGCAGCAGGCCAUAGCUGCGGCAAAGCAGCGUGAGGCCGAACUUAUGGCUCU
...(((((......((..((((..(((((...)))))........(((((......))))))))).)).((((...(((((......)))))....)))).........))))) ( -46.90)
>DroEre_CAF1 2069 99 - 1
GGCUGAGCAGCAGCGCC---------------GGGCACAAGAAGAGGCCAAGCAUCAGGCACUCCAAAUAGCCAUUGCCGCUGCAAAGAAGCGAGAAGCUGAGCUCAUGGCCAU
((((((((.(((((((.---------------.(((.......((((((........))).)))......)))...).)))))).....(((.....)))..))))..)))).. ( -38.72)
>DroYak_CAF1 2067 99 - 1
GGCCGAGCAGCAGCGAC---------------GGGCACAAGAAGAGGCCAAGCAUCAGGCCCUGCAAAUAGCACUUGCCGCUGCGAAGAAGCGGGAAGCUGAACUCAUGGCUAU
(((((((...((((..(---------------.((((.....((.((((........))))))((.....))...)))).((((......)))))..))))..)))..)))).. ( -34.70)
>DroMoj_CAF1 2279 105 - 1
UGCCGAGCAACAGCGACAGCA---------GAAGGCCGCCGAUGAGGCCAAAUUUGCUGCACUGCAGCAGGCCAUAGCCACGGCCAAGCAGCGUGAGCAGGAGCUGCUGGAGCU
(((...)))..(((..(((((---------(..(((((....((.((((.....((((((...)))))))))).))....))))).....((....)).....))))))..))) ( -45.70)
>DroPer_CAF1 1352 114 - 1
GGCAGAGCAACAGCGCCAGCAGCAGGCCCAAAGGGCCCAGGAAGAGGCCAGAAUGAUGGCUCUGCAGCAGGCCAUAGCUGCAGCCAAGCAGCGUGAGGCCGAACUUAUGGCUCU
...(((((......((..((((..(((((...)))))........(((((......))))))))).)).((((...(((((......)))))....)))).........))))) ( -46.20)
>consensus
GGCAGAGCAACAGCGAC_______________GGGCACAAGAAGAGGCCAAACAUCAGGCACUGCAACAAGCCAUAGCCGCUGCAAAGAAGCGUGAAGCUGAACUCAUGGCUAU
(((((............................(((.........((((........)))).........)))...((..((((......)).))..))........))))).. (-13.06 = -13.20 +   0.14)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:24:01 2006