Locus 8682

Sequence ID	X_DroMel_CAF1
Location	22,014,816 – 22,014,952
Length	136
Max. P	0.814625

overview

Window 5

Location	22,014,816 – 22,014,936
Length	120
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	75.17
Mean single sequence MFE	-47.02
Consensus MFE	-20.47
Energy contribution	-22.14
Covariance contribution	1.67
Combinations/Pair	1.45
Mean z-score	-2.11
Structure conservation index	0.44
SVM decision value	0.59
SVM RNA-class probability	0.792511
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 22014816 120 + 22224390
CCUGCCUCCCGCUGAUGUCGUGCGUCCAAAAGACGUUCUCCAAUCGCAGCUCUUUGGCAAUGGCCCGUAGCAGUUUCUCCAAAGAGGCAUCCCCCUUAAGAUUGAGCAGCUGCAGGGCCC
..((((....((((.((..(.(((((.....))))).)..))....)))).....))))..(((((...((((((.(((....((((......))))......))).)))))).))))). ( -41.80)
>DroSec_CAF1 82209 120 + 1
CCUGCCUCCCGCUGAUGUCGUGCGUCCAAAAGACGUUCUCCAAUCGCAGCUCUUUGGCAAUGGCCCGCAGCAGCUUCUCCAAAGAAGCAUCCCCCUUAAGAUUGGGCAGCUGCAGGGCCC
..((((....((((.((..(.(((((.....))))).)..))....)))).....))))..((((((((((.((((((....))))))....(((........)))..))))).))))). ( -49.50)
>DroEre_CAF1 56353 120 + 1
GCUGCCUCCCGCUGAUGUCGUGCGACCAGAAGACGUCCUCCAAGCGCAGCUCCUGGGCAAUGGCCCUCAAGAGCUGCUCCAAAGGCGCGUCCUCCCCAAGAUUGGGCAGCUGCAGGGCCC
...((((..(((((..(((....)))..((.((((((((....(.(((((((..((((....))))....))))))).)...))).))))).))((((....)))))))).)..)))).. ( -47.10)
>DroYak_CAF1 64985 120 + 1
GCUGCCUCCCGCCGAUGUCGUGCGACCAGAAGACGUCCUCCAACCGCAGCUCCUGGGCAAUGGCCCUCAGCAGCUGCUCCAACGAGGCAUCCUCCUUAAGGUUGGGCAGCUGCAGGGCUC
(((((........((((((...(.....)..))))))........)))))((((((((....))))...((((((((.(((((((((......))))...)))))))))))))))))... ( -51.99)
>DroMoj_CAF1 34465 120 + 1
GCUGGCCGCCGCUGAGGUCCUGUGACCAGAACACAUGCUCCAGCCGCAGCUGGGAGAUAAUCUGGCGCAGCACCUUCUCCAUUGGCGCUGUCCGGUCCACAUCCGGCAGCUCCAGCGAUC
(((((..((((.((((((.(((((.(((((.......(((((((....))).))))....)))))))))).))))....)).))))((((.((((.......)))))))).))))).... ( -55.60)
>DroAna_CAF1 33797 120 + 1
GCUGCUUGCCCUCCACGUCCUGCGACCAAAAGACAUCCUCCAGCCGCAGCUCGUCCACAAUCGCCCGCAGGACGUGCUCCAGCGUGGCAUUGUUCUUCAGAUAGGGCAUCACCAGAGCUC
.(((..((((((..(((..(((((....................)))))..)))..(((((.((((((.(((.....))).))).)))))))).........))))))....)))..... ( -36.15)
>consensus
GCUGCCUCCCGCUGAUGUCGUGCGACCAAAAGACGUCCUCCAACCGCAGCUCCUGGGCAAUGGCCCGCAGCAGCUGCUCCAAAGAGGCAUCCCCCUUAAGAUUGGGCAGCUGCAGGGCCC
(((((........((((((............))))))........)))))...........(((((...((((((.(((....((((......))))......))).)))))).))))). (-20.47 = -22.14 +   1.67)

alignment

secondary structure

dotplot

Window 6

Location	22,014,856 – 22,014,952
Length	96
Sequences	6
Columns	96
Reading direction	forward
Mean pairwise identity	67.73
Mean single sequence MFE	-37.43
Consensus MFE	-15.03
Energy contribution	-16.95
Covariance contribution	1.92
Combinations/Pair	1.67
Mean z-score	-1.85
Structure conservation index	0.40
SVM decision value	0.66
SVM RNA-class probability	0.814625
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 22014856 96 + 22224390
CAAUCGCAGCUCUUUGGCAAUGGCCCGUAGCAGUUUCUCCAAAGAGGCAUCCCCCUUAAGAUUGAGCAGCUGCAGGGCCCUCCCCUGGGACAUAGG
........(((....)))...(((((...((((((.(((....((((......))))......))).)))))).))))).(((....)))...... ( -29.30)
>DroVir_CAF1 33363 94 + 1
CAGCCGCAACUGCAGGGCAAUCUGGCGUACCACCUGCUCCAGUGGUGCAUUUCUUGACAGCUCCCGCAGGUGCAGAGCUCGGCUGUUGU--GUGAC
((((((((.((((.((((..((.((.(((((((........)))))))....)).))..)).)).)))).))).(....))))))....--..... ( -34.10)
>DroGri_CAF1 37427 94 + 1
CAGCCGCAGUUGCAUUACAAUCCGACGCAGCACUUGUGCCAGCGGUGUAUUGUCCGGCAACUCCGGCAGCUGCAGCGCUCUACUCAUCC--GUGGC
..((((.((((((...(((((.((.(((.(((....)))..))).)).)))))...)))))).)))).((....))...((((......--)))). ( -32.80)
>DroSec_CAF1 82249 96 + 1
CAAUCGCAGCUCUUUGGCAAUGGCCCGCAGCAGCUUCUCCAAAGAAGCAUCCCCCUUAAGAUUGGGCAGCUGCAGGGCCCUGCUCUGGGACAUAGG
........(..((..((((..((((((((((.((((((....))))))....(((........)))..))))).))))).))))..))..)..... ( -39.80)
>DroEre_CAF1 56393 96 + 1
CAAGCGCAGCUCCUGGGCAAUGGCCCUCAAGAGCUGCUCCAAAGGCGCGUCCUCCCCAAGAUUGGGCAGCUGCAGGGCCCUGCUCUGGCUCCUAAG
.....(((((((..((((....))))....))))))).....(((.((......((((....))))(((..((((....)))).))))).)))... ( -40.10)
>DroYak_CAF1 65025 96 + 1
CAACCGCAGCUCCUGGGCAAUGGCCCUCAGCAGCUGCUCCAACGAGGCAUCCUCCUUAAGGUUGGGCAGCUGCAGGGCUCUGCUCUGGCACUUUGG
...(((.((..((.(((((..((((((..((((((((.(((((((((......))))...))))))))))))))))))).))))).))..)).))) ( -48.50)
>consensus
CAACCGCAGCUCCUGGGCAAUGGCCCGCAGCAGCUGCUCCAAAGAGGCAUCCCCCUUAAGAUUGGGCAGCUGCAGGGCCCUGCUCUGGCACAUAGG
...........((((((....(((((...((((((((((.....(((.......)))......)))))))))).)))))....))))))....... (-15.03 = -16.95 +   1.92)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:10:16 2006