Locus 6557

Sequence ID	3L_DroMel_CAF1
Location	17,331,010 – 17,331,107
Length	97
Max. P	0.973833

overview

Window 5

Location	17,331,010 – 17,331,107
Length	97
Sequences	6
Columns	107
Reading direction	forward
Mean pairwise identity	80.17
Mean single sequence MFE	-24.84
Consensus MFE	-15.78
Energy contribution	-16.37
Covariance contribution	0.59
Combinations/Pair	1.33
Mean z-score	-3.37
Structure conservation index	0.64
SVM decision value	1.72
SVM RNA-class probability	0.973833
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17331010 97 + 23771897
CGCGAAAAUCCCGCGCUAAUUCCGCCAUUGUGUGGGCUUCCGCACAAAA----AGAGGAAAAUUCGGGGAAAUAU-GCGAAAAAUCCUCGCAAAAAA-----AAAAA
.((((........(((((.((((.((.((((((((....))))))))..----.(((.....))))))))).)).-)))........))))......-----..... ( -28.99)
>DroPse_CAF1 15523 93 + 1
CGCGAAAAUCCCGCAAUAAUUCUAUCAUUGUGAGGGCUGA--CAUAAAA----AGAAGAAAAGUUGCGAAAAAAUUAAUGAAAAUCCUGACAAAAAA--------AU
...........((((((..((((.((.(((((........--)))))..----.))))))..)))))).............................--------.. ( -11.20)
>DroSec_CAF1 12764 102 + 1
CGCGAAAAUCCCGCGCUAAAUCCGCCAUUGUGUGGGCUUCCGCACAAAA----AGAGGAAAAUUCGGGGAAAAAU-GCGAAAAAUCUUUGCAAAAAAAAAAAAAAAA
.(((((.......(((....(((.((.((((((((....))))))))..----.(((.....)))))))).....-))).......)))))................ ( -26.24)
>DroSim_CAF1 12633 101 + 1
CGCGAAAAUCCUGCGCUAAAGCCGCCAUUGUGUGGACUUCCGCACAAAA----AGAGGAAAAUUCGGGAAAAUAU-GCGAA-AAUCCUUGCAAAAAAAAAAAAAAAA
(.((((..((((((((....).)))..((((((((....))))))))..----..))))...)))).)......(-((((.-.....)))))............... ( -26.40)
>DroEre_CAF1 19294 94 + 1
CGCGAAAAUCCCGCGGUAAGUCCACCAUUGUGUGGGCUUCCGCACAAAA-----AAGGAAAAUUCGGGGAAAAAU-GCGAAAAAUCCUUGCAAAAGAAAA-------
.((.........((((.((((((((......))))))))))))......-----(((((...((((.(......)-.))))...))))))).........------- ( -30.20)
>DroYak_CAF1 19428 102 + 1
CGCGAAAAUCCCGCGGUAAAUCCGCCAUUGUGUGGGCUUCUGCACAAAAAAUAAAAGGAAAAUUCGGGGAAAAAU-GCGAAAAAUCCUUGCAAAAAAAAA----AGG
((((....((((((((.....))))..(((((..(....)..)))))...................))))....)-)))......((((..........)----))) ( -26.00)
>consensus
CGCGAAAAUCCCGCGCUAAAUCCGCCAUUGUGUGGGCUUCCGCACAAAA____AGAGGAAAAUUCGGGGAAAAAU_GCGAAAAAUCCUUGCAAAAAAAAA____AAA
((((.......))))............((((((((....)))))))).......(((((...((((...........))))...))))).................. (-15.78 = -16.37 +   0.59)

alignment

secondary structure

dotplot

Window 6

Location	17,331,010 – 17,331,107
Length	97
Sequences	6
Columns	107
Reading direction	reverse
Mean pairwise identity	80.17
Mean single sequence MFE	-23.04
Consensus MFE	-12.89
Energy contribution	-13.83
Covariance contribution	0.95
Combinations/Pair	1.20
Mean z-score	-1.92
Structure conservation index	0.56
SVM decision value	0.16
SVM RNA-class probability	0.612042
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17331010 97 - 23771897
UUUUU-----UUUUUUGCGAGGAUUUUUCGC-AUAUUUCCCCGAAUUUUCCUCU----UUUUGUGCGGAAGCCCACACAAUGGCGGAAUUAGCGCGGGAUUUUCGCG
.....-----......((((((((((..(((-.((.((((((((.......)).----..(((((.((....)).))))).)).)))).)))))..)))))))))). ( -31.50)
>DroPse_CAF1 15523 93 - 1
AU--------UUUUUUGUCAGGAUUUUCAUUAAUUUUUUCGCAACUUUUCUUCU----UUUUAUG--UCAGCCCUCACAAUGAUAGAAUUAUUGCGGGAUUUUCGCG
..--------..........................(..(((((...((((((.----..((.((--........)).)).)).))))...)))))..)........ ( -10.00)
>DroSec_CAF1 12764 102 - 1
UUUUUUUUUUUUUUUUGCAAAGAUUUUUCGC-AUUUUUCCCCGAAUUUUCCUCU----UUUUGUGCGGAAGCCCACACAAUGGCGGAUUUAGCGCGGGAUUUUCGCG
............................(((-.....((((((.....(((.((----..(((((.((....)).))))).)).))).....)).)))).....))) ( -24.90)
>DroSim_CAF1 12633 101 - 1
UUUUUUUUUUUUUUUUGCAAGGAUU-UUCGC-AUAUUUUCCCGAAUUUUCCUCU----UUUUGUGCGGAAGUCCACACAAUGGCGGCUUUAGCGCAGGAUUUUCGCG
............((((((..(((((-(((((-(((.......((....))....----...)))))))))))))........((.......))))))))........ ( -24.84)
>DroEre_CAF1 19294 94 - 1
-------UUUUCUUUUGCAAGGAUUUUUCGC-AUUUUUCCCCGAAUUUUCCUU-----UUUUGUGCGGAAGCCCACACAAUGGUGGACUUACCGCGGGAUUUUCGCG
-------.........(((((((...((((.-.........))))...)))))-----..((.((((((((.((((......)))).))).))))).)).....)). ( -26.30)
>DroYak_CAF1 19428 102 - 1
CCU----UUUUUUUUUGCAAGGAUUUUUCGC-AUUUUUCCCCGAAUUUUCCUUUUAUUUUUUGUGCAGAAGCCCACACAAUGGCGGAUUUACCGCGGGAUUUUCGCG
...----...........(((((...((((.-.........))))...))))).........(((.((((.(((.(.....)((((.....))))))).))))))). ( -20.70)
>consensus
UUU____UUUUUUUUUGCAAGGAUUUUUCGC_AUUUUUCCCCGAAUUUUCCUCU____UUUUGUGCGGAAGCCCACACAAUGGCGGAUUUAGCGCGGGAUUUUCGCG
.............(((((.((((...((((...........))))...))))........(((((.((....)).)))))..))))).....(((((.....))))) (-12.89 = -13.83 +   0.95)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:24:17 2006