Locus 800

Sequence ID	X_DroMel_CAF1
Location	2,226,306 – 2,226,407
Length	101
Max. P	0.849278

overview

Window 6

Location	2,226,306 – 2,226,407
Length	101
Sequences	6
Columns	113
Reading direction	forward
Mean pairwise identity	76.82
Mean single sequence MFE	-35.22
Consensus MFE	-22.67
Energy contribution	-22.32
Covariance contribution	-0.36
Combinations/Pair	1.21
Mean z-score	-1.23
Structure conservation index	0.64
SVM decision value	0.07
SVM RNA-class probability	0.567432
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2226306 101 + 22224390
CGAAGCGCUGGCGGCGUCGCCGACAGCCACCGAGCAGCCACUGUCAGCAGUAGCGCCAGAUUUUUUUCGAGGUAGCUCCUAAACAGA------------AACCUUCAUUAUUU
.((((.((((.((((...)))).))))....((((.((.((((....)))).))(((.((......))..))).)))).........------------...))))....... ( -32.10)
>DroGri_CAF1 2326 112 + 1
CGAAGCGUUGACGGCGUCGACGACAUCCGCCGAGUAGCCACUGUCAGCAGUAGCGCCAGAUUUUCUUUGAGGUGGCUGCUGCAAUCAAAUUUC-ACAAAAGUCUCGUUUAUUA
..(((((..((((((.(((.((.....)).)))...))).......(((((((((((.((......))..))).))))))))...........-......))).))))).... ( -33.90)
>DroSec_CAF1 3959 109 + 1
CGAAGCGCUGGCGGCGUCGCCGACAACCACCGAGCAGCCACUGUCAGCAGUAGCGCCAGAUCUUUUUCGAGGUAGCUCCUAAACGGAAACAC----GGAAAUCUUCAUUAUUG
.((((..((((((((...((((........)).)).)))((((....))))...)))))....(((((((((.....)))....(....).)----))))).))))....... ( -32.70)
>DroEre_CAF1 4873 107 + 1
CGAAGCGCUGGCGGCGCCGCCGACAACCACCGAGCAGCCACUGUCAGCAGUAGCGCCAGAUCUUCUUCGAGGUGGCUCCUAAACAGAAAUUU----UCAGAAU--UUUCAUUU
.((((.((((((((.((.((((........)).)).))..))))))))..(((.((((..((......))..))))..))).........))----)).....--........ ( -29.00)
>DroYak_CAF1 5031 109 + 1
CGAAGCGCUGGCGGCGCCUCCGGCAGCCACCGAGCAGCCACUGUCAGCAGUAGCGCCAGAUCUUCUUCGAGGUGGCUCCUAAGCAGAAUAAU----GCAUUAUAUCAUCAAUU
.((.((((.....)))).)).((.((((((((.((.((.((((....)))).))))).((......))..)))))))))...(((......)----))............... ( -36.80)
>DroMoj_CAF1 2896 107 + 1
CGAAGCGCUGGCGGCGCCGGCGGCAGCCGCCGAACAGCCACUGUCAGCAGUAGCGCCAGAUUUUCUUUGAGGUGGCUGCUAAA------CACCGAAAAGAAGAUCGAUUAUUC
....((((((((((((((...))).))))))........((((....)))))))))..((((((((((..((((.........------))))..))))))))))........ ( -46.80)
>consensus
CGAAGCGCUGGCGGCGCCGCCGACAGCCACCGAGCAGCCACUGUCAGCAGUAGCGCCAGAUCUUCUUCGAGGUGGCUCCUAAACAGAAACAU____AAAAAACUUCAUUAUUU
......((((((((.((.((((........)).)).))..))))))))((.((((((.((......))..))).))).))................................. (-22.67 = -22.32 +  -0.36)

alignment

secondary structure

dotplot

Window 7

Location	2,226,306 – 2,226,407
Length	101
Sequences	6
Columns	113
Reading direction	reverse
Mean pairwise identity	76.82
Mean single sequence MFE	-37.64
Consensus MFE	-30.48
Energy contribution	-30.20
Covariance contribution	-0.28
Combinations/Pair	1.25
Mean z-score	-1.16
Structure conservation index	0.81
SVM decision value	0.78
SVM RNA-class probability	0.849278
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2226306 101 - 22224390
AAAUAAUGAAGGUU------------UCUGUUUAGGAGCUACCUCGAAAAAAAUCUGGCGCUACUGCUGACAGUGGCUGCUCGGUGGCUGUCGGCGACGCCGCCAGCGCUUCG
.......(((((((------------(((....))))))...............((((((....((((((((((.(((....))).))))))))))....))))))..)))). ( -38.80)
>DroGri_CAF1 2326 112 - 1
UAAUAAACGAGACUUUUGU-GAAAUUUGAUUGCAGCAGCCACCUCAAAGAAAAUCUGGCGCUACUGCUGACAGUGGCUACUCGGCGGAUGUCGUCGACGCCGUCAACGCUUCG
.......((((.....((.-.(.......)..))((.((((..............))))(((((((....))))))).....(((((.((((...)))))))))...)))))) ( -29.04)
>DroSec_CAF1 3959 109 - 1
CAAUAAUGAAGAUUUCC----GUGUUUCCGUUUAGGAGCUACCUCGAAAAAGAUCUGGCGCUACUGCUGACAGUGGCUGCUCGGUGGUUGUCGGCGACGCCGCCAGCGCUUCG
.......((((.((((.----(((.((((.....)))).)))...)))).....((((((....(((((((((..(((....)))..)))))))))....))))))..)))). ( -36.20)
>DroEre_CAF1 4873 107 - 1
AAAUGAAA--AUUCUGA----AAAUUUCUGUUUAGGAGCCACCUCGAAGAAGAUCUGGCGCUACUGCUGACAGUGGCUGCUCGGUGGUUGUCGGCGGCGCCGCCAGCGCUUCG
........--.((((((----(........)))))))...........((((..((((((...((((((((((..(((....)))..))))))))))...))))))..)))). ( -38.30)
>DroYak_CAF1 5031 109 - 1
AAUUGAUGAUAUAAUGC----AUUAUUCUGCUUAGGAGCCACCUCGAAGAAGAUCUGGCGCUACUGCUGACAGUGGCUGCUCGGUGGCUGCCGGAGGCGCCGCCAGCGCUUCG
...............((----(......)))...(((((((((((......))...((((((((((....))))))).))).))))))).)).(((((((.....))))))). ( -41.80)
>DroMoj_CAF1 2896 107 - 1
GAAUAAUCGAUCUUCUUUUCGGUG------UUUAGCAGCCACCUCAAAGAAAAUCUGGCGCUACUGCUGACAGUGGCUGUUCGGCGGCUGCCGCCGGCGCCGCCAGCGCUUCG
........(((.((((((..((((------.........))))..)))))).))).((((((((((....))))))).(((.((((((.(((...)))))))))))))))... ( -41.70)
>consensus
AAAUAAUGAAGAUUUGC____AUAUUUCUGUUUAGGAGCCACCUCGAAGAAAAUCUGGCGCUACUGCUGACAGUGGCUGCUCGGUGGCUGUCGGCGACGCCGCCAGCGCUUCG
..................................(((((....................(((((((....))))))).(((.((((((.(((...))))))))))))))))). (-30.48 = -30.20 +  -0.28)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:54:07 2006