Locus 6730

Sequence ID	X_DroMel_CAF1
Location	16,752,459 – 16,752,574
Length	115
Max. P	0.733072

overview

Window 0

Location	16,752,459 – 16,752,574
Length	115
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	91.60
Mean single sequence MFE	-25.48
Consensus MFE	-19.63
Energy contribution	-20.08
Covariance contribution	0.45
Combinations/Pair	1.06
Mean z-score	-1.76
Structure conservation index	0.77
SVM decision value	0.43
SVM RNA-class probability	0.733072
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16752459 115 + 22224390
AAACUCGUUUACAUCCAAUAUGAAUAUAUAGAUACAUAUAUGGAUCAUAUACUCGUAUAUGUUUGUAGGCAUCUUUUGUUGCCGCUGACGAGUUUCUUUUGUGAAUG-----AAAUAAAC
(((((((((((((..((((((((.(((((.(((.((....)).)))))))).)))))).))..))))((((........))))...)))))))))............-----........ ( -29.10)
>DroSec_CAF1 39525 115 + 1
AAACUCGUUUACAUCAGAUAUGAAUAUAUAGAUACAUAUAUGGAUCACAUACGCGUAUAUGUUUGUAGGCAUCUUUUGUUGCCGCUGACGAGUUUCUUUUGUGAAUG-----AAAUAAAC
....(((((((((..(((.((............((((((((((........).)))))))))((((.((((........))))....)))))).)))..))))))))-----)....... ( -26.30)
>DroSim_CAF1 36666 115 + 1
AAACUCGUUUACAUCAGAUAUGAAUAUAUAGAUACAUAUAUGGAUCACAUACGCGUAUAUGUUUGUAGGCAUCUUUUGUUGCCGCUGACGAGUUUCUUUUGUGAAUG-----AAAUAAAC
....(((((((((..(((.((............((((((((((........).)))))))))((((.((((........))))....)))))).)))..))))))))-----)....... ( -26.30)
>DroEre_CAF1 31040 107 + 1
AAACUUGUUUACAUCCAAUCUGAAUAUAUAGAUACAU--AUGGAUCACAU------AUAUGUUUGUAGGCAUCUUUUGUUGCCGCUGACGAGUUUCUUUUGUGAAUG-----AAAUAAAC
(((((((((..(..............((((((((.((--(((.....)))------)).))))))))((((........)))))..)))))))))............-----........ ( -23.80)
>DroYak_CAF1 31219 116 + 1
AAACUUGUUUACAUCCAAUAUGAAUAUAUAGAUACAU--AUGGAUCACAUACU--UAUAUGUUUGUAGGCACCUUUUGUUGGCGCUGACGAGUUUCUUUUGUGAAUGAAAUGAAAUAAAC
(((((((((.........((..(((((((((.....(--(((.....)))).)--))))))))..))(((.((.......)).))))))))))))......................... ( -21.90)
>consensus
AAACUCGUUUACAUCCAAUAUGAAUAUAUAGAUACAUAUAUGGAUCACAUACGCGUAUAUGUUUGUAGGCAUCUUUUGUUGCCGCUGACGAGUUUCUUUUGUGAAUG_____AAAUAAAC
(((((((((..(......((((((((((((........((((.....))))....))))))))))))((((.(....).)))))..)))))))))......................... (-19.63 = -20.08 +   0.45)

alignment

secondary structure

dotplot

Window 1

Location	16,752,459 – 16,752,574
Length	115
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	91.60
Mean single sequence MFE	-22.42
Consensus MFE	-16.85
Energy contribution	-18.14
Covariance contribution	1.29
Combinations/Pair	1.03
Mean z-score	-1.84
Structure conservation index	0.75
SVM decision value	0.33
SVM RNA-class probability	0.689602
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16752459 115 - 22224390
GUUUAUUU-----CAUUCACAAAAGAAACUCGUCAGCGGCAACAAAAGAUGCCUACAAACAUAUACGAGUAUAUGAUCCAUAUAUGUAUCUAUAUAUUCAUAUUGGAUGUAAACGAGUUU
........-----............((((((((....((((.(....).))))((((..((.(((.(((((((((((.((....)).))).)))))))).)))))..)))).)))))))) ( -26.50)
>DroSec_CAF1 39525 115 - 1
GUUUAUUU-----CAUUCACAAAAGAAACUCGUCAGCGGCAACAAAAGAUGCCUACAAACAUAUACGCGUAUGUGAUCCAUAUAUGUAUCUAUAUAUUCAUAUCUGAUGUAAACGAGUUU
........-----............((((((((..((((((.(....).)))).......(((((.(((((((((...)))))))))...))))).............))..)))))))) ( -23.10)
>DroSim_CAF1 36666 115 - 1
GUUUAUUU-----CAUUCACAAAAGAAACUCGUCAGCGGCAACAAAAGAUGCCUACAAACAUAUACGCGUAUGUGAUCCAUAUAUGUAUCUAUAUAUUCAUAUCUGAUGUAAACGAGUUU
........-----............((((((((..((((((.(....).)))).......(((((.(((((((((...)))))))))...))))).............))..)))))))) ( -23.10)
>DroEre_CAF1 31040 107 - 1
GUUUAUUU-----CAUUCACAAAAGAAACUCGUCAGCGGCAACAAAAGAUGCCUACAAACAUAU------AUGUGAUCCAU--AUGUAUCUAUAUAUUCAGAUUGGAUGUAAACAAGUUU
((((((((-----((.((...................((((.(....).)))).......((((------(((((...)))--))))))...........)).)))).))))))...... ( -18.30)
>DroYak_CAF1 31219 116 - 1
GUUUAUUUCAUUUCAUUCACAAAAGAAACUCGUCAGCGCCAACAAAAGGUGCCUACAAACAUAUA--AGUAUGUGAUCCAU--AUGUAUCUAUAUAUUCAUAUUGGAUGUAAACAAGUUU
((((((..........(((((..........((..(((((.......)))))..))..((.....--.)).)))))(((((--(((............)))).)))).))))))...... ( -21.10)
>consensus
GUUUAUUU_____CAUUCACAAAAGAAACUCGUCAGCGGCAACAAAAGAUGCCUACAAACAUAUACGAGUAUGUGAUCCAUAUAUGUAUCUAUAUAUUCAUAUUGGAUGUAAACGAGUUU
.........................((((((((..((((((.(....).))))......((((((....))))))(((((...(((((....)))))......)))))))..)))))))) (-16.85 = -18.14 +   1.29)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:21:08 2006