Locus 2765

Sequence ID	2R_DroMel_CAF1
Location	9,682,660 – 9,682,755
Length	95
Max. P	0.999924

overview

Window 9

Location	9,682,660 – 9,682,755
Length	95
Sequences	5
Columns	109
Reading direction	forward
Mean pairwise identity	73.05
Mean single sequence MFE	-19.86
Consensus MFE	-10.85
Energy contribution	-10.97
Covariance contribution	0.12
Combinations/Pair	1.19
Mean z-score	-1.77
Structure conservation index	0.55
SVM decision value	0.59
SVM RNA-class probability	0.793267
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9682660 95 + 20766785
CUUUUUAUUAUUAAGCCAAGCUUUGAUAAACAAAUUUG---AUAUGCA-----------AGUGCCGCCGCAUACAAUUUGUUUGUCUAAAUCUGGCUUUAGUCUUUAGU
............((((((.(.(((((((((((((((.(---.(((((.-----------.........)))))))))))))))))).))).)))))))........... ( -23.20)
>DroSec_CAF1 5132 103 + 1
UUUUUUAUUAUUAAGCCAAGCUUAGAUAAACAAAAUUG---AUGUGCAACAGAAUGUAAAGU---GCCGCAUACAAUUUGUUUAUCCAAAUCUGGCUUUAGUCUUUAGU
............((((((......((((((((((.(((---(((((((((.....))....)---).))))).)))))))))))))......))))))........... ( -22.40)
>DroSim_CAF1 5153 103 + 1
UUUUUUAUUUUUAAGCCAAGCUUAGAUAAACACAAUUG---AUAUGCAGCCGAAUGUAAAGU---GCCUCAUACAAUUUGUUUGUCCAAAUCUGGCUUUAGUCUUUAGU
............((((((......((((((((.(((((---.((((..(((.........).---))..)))))))))))))))))......))))))........... ( -21.70)
>DroEre_CAF1 5250 81 + 1
UUUUUUAUUUUUAAGUCAAGUUCAGAUGAACCAAAUUU---AUAUGCAA-------------------------CUUUUGUUUGUCUAAAUCUGGCUUAAGCUUGUAGC
.........(((((((((..((.(((..(((.(((.((---......))-------------------------.))).)))..))).))..)))))))))........ ( -16.00)
>DroYak_CAF1 5210 96 + 1
UUUUUUAUUGUUAAGCCAAGUUCAGAUAAACAAAAUUGAAUGUAUGUCG----------GUU---AUCGCUUAUAAUUUGUUUGCCUAAAUCUGGCUUUAGUCUGUAGC
....((((.(..((((((..((.((.((((((((..(((.((.(((...----------..)---)))).)))...)))))))).)).))..))))))....).)))). ( -16.00)
>consensus
UUUUUUAUUAUUAAGCCAAGCUUAGAUAAACAAAAUUG___AUAUGCAA__________AGU___GCCGCAUACAAUUUGUUUGUCUAAAUCUGGCUUUAGUCUUUAGU
............((((((......((((((((((..........................................))))))))))......))))))........... (-10.85 = -10.97 +   0.12)

alignment

secondary structure

dotplot

Window 0

Location	9,682,660 – 9,682,755
Length	95
Sequences	5
Columns	109
Reading direction	reverse
Mean pairwise identity	73.05
Mean single sequence MFE	-23.31
Consensus MFE	-13.91
Energy contribution	-14.11
Covariance contribution	0.20
Combinations/Pair	1.20
Mean z-score	-3.78
Structure conservation index	0.60
SVM decision value	4.59
SVM RNA-class probability	0.999924
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9682660 95 - 20766785
ACUAAAGACUAAAGCCAGAUUUAGACAAACAAAUUGUAUGCGGCGGCACU-----------UGCAUAU---CAAAUUUGUUUAUCAAAGCUUGGCUUAAUAAUAAAAAG
...........(((((((.(((.((.(((((((((((((((((......)-----------)))))))---..))))))))).)).))).)))))))............ ( -24.40)
>DroSec_CAF1 5132 103 - 1
ACUAAAGACUAAAGCCAGAUUUGGAUAAACAAAUUGUAUGCGGC---ACUUUACAUUCUGUUGCACAU---CAAUUUUGUUUAUCUAAGCUUGGCUUAAUAAUAAAAAA
...........(((((((.(((((((((((((((((..((((((---(..........)))))))...---))).)))))))))))))).)))))))............ ( -32.20)
>DroSim_CAF1 5153 103 - 1
ACUAAAGACUAAAGCCAGAUUUGGACAAACAAAUUGUAUGAGGC---ACUUUACAUUCGGCUGCAUAU---CAAUUGUGUUUAUCUAAGCUUGGCUUAAAAAUAAAAAA
...........(((((((.((((((.((((((((((((((.(((---............))).)))).---))))).))))).)))))).)))))))............ ( -26.70)
>DroEre_CAF1 5250 81 - 1
GCUACAAGCUUAAGCCAGAUUUAGACAAACAAAAG-------------------------UUGCAUAU---AAAUUUGGUUCAUCUGAACUUGACUUAAAAAUAAAAAA
....((((.((((((((((((((....(((....)-------------------------)).....)---))))))))))....))).))))................ ( -14.80)
>DroYak_CAF1 5210 96 - 1
GCUACAGACUAAAGCCAGAUUUAGGCAAACAAAUUAUAAGCGAU---AAC----------CGACAUACAUUCAAUUUUGUUUAUCUGAACUUGGCUUAACAAUAAAAAA
...........(((((((.(((((..(((((((...........---...----------...............)))))))..))))).)))))))............ ( -18.45)
>consensus
ACUAAAGACUAAAGCCAGAUUUAGACAAACAAAUUGUAUGCGGC___ACU__________CUGCAUAU___CAAUUUUGUUUAUCUAAGCUUGGCUUAAAAAUAAAAAA
...........(((((((.((((((.(((((((..........................................))))))).)))))).)))))))............ (-13.91 = -14.11 +   0.20)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:38:55 2006