Locus 6173

Sequence ID	3R_DroMel_CAF1
Location	16,167,440 – 16,167,531
Length	91
Max. P	0.724253

overview

Window 2

Location	16,167,440 – 16,167,531
Length	91
Sequences	6
Columns	97
Reading direction	forward
Mean pairwise identity	82.44
Mean single sequence MFE	-32.05
Consensus MFE	-19.86
Energy contribution	-21.20
Covariance contribution	1.34
Combinations/Pair	1.17
Mean z-score	-2.44
Structure conservation index	0.62
SVM decision value	0.41
SVM RNA-class probability	0.724253
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16167440 91 + 27905053
UA-----CACACUCACGGAUAGGCAAACAGCCACAAGCAUGUGAGUGUGGUUUUGUU-UGGGGCUUGGCUUUGGAUCCUGCACAGCCCCAACAUUGA
..-----((((((((((....(((.....))).......))))))))))....((((-.((((((..((...(....).))..)))))))))).... ( -36.10)
>DroSec_CAF1 2636 91 + 1
UU-----CACACUCACGGAGAGGCAAACAGCCACAAGCAUGUGAGUGUGGUUUUGUU-UGGGGCUUGGCUUUGGAUCCUGCUCAGCCCCAACAUUGA
.(-----(((((((((((.(.(((.....))).)...).)))))))))))...((((-.((((((.(((...(....).))).)))))))))).... ( -38.50)
>DroSim_CAF1 2637 91 + 1
UU-----CACACUCACGGAUAGGCAAACAGCCACAAGCAUGUGAGUGUGGUUUUGUU-UGGGGCUUGGCUUUGGAUCCUGCACAGCCCCAACAUUGA
.(-----((((((((((....(((.....))).......)))))))))))...((((-.((((((..((...(....).))..)))))))))).... ( -36.10)
>DroEre_CAF1 2670 91 + 1
UU-----CACACUCACAGAUAGGCAAACAGCCACAAGCAUGUGAGUGUGGUUUUGUU-UGGGGCUUGGCUUUGGAUCCUGCACAGCACCAACAUUGA
.(-----((((((((((....(((.....))).......)))))))))))...((((-.((.(((..((...(....).))..))).)))))).... ( -29.80)
>DroWil_CAF1 2819 85 + 1
UUCGCCAUACACUCACCCAUAUGUAGUUGGCCACAGGCGUGUGCAUGUGGUUUUGUUUUGGGGCUUAGCUUUGGC------------ACAACAUUGA
...((((........((((.........(((((((.((....)).)))))))......)))).........))))------------.......... ( -23.09)
>DroAna_CAF1 2533 89 + 1
-------CACUCGCACAGUUGGGCCAACAGCCACAAGCAUGUGCAUGUGGUUUUGUU-UGGGGCUUGGCUUCGGAUCCGGCACAGCACCAACAUUGA
-------.....((..(((..((((((((((((((.((....)).))))))..))))-...))))..)))(((....)))....))........... ( -28.70)
>consensus
UU_____CACACUCACGGAUAGGCAAACAGCCACAAGCAUGUGAGUGUGGUUUUGUU_UGGGGCUUGGCUUUGGAUCCUGCACAGCCCCAACAUUGA
.......((((((((((....(((.....))).......))))))))))....(((..(((.(((..((..........))..))).)))))).... (-19.86 = -21.20 +   1.34)

alignment

secondary structure

dotplot

Window 3

Location	16,167,440 – 16,167,531
Length	91
Sequences	6
Columns	97
Reading direction	reverse
Mean pairwise identity	82.44
Mean single sequence MFE	-30.38
Consensus MFE	-17.56
Energy contribution	-18.95
Covariance contribution	1.39
Combinations/Pair	1.09
Mean z-score	-2.57
Structure conservation index	0.58
SVM decision value	0.32
SVM RNA-class probability	0.686668
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16167440 91 - 27905053
UCAAUGUUGGGGCUGUGCAGGAUCCAAAGCCAAGCCCCA-AACAAAACCACACUCACAUGCUUGUGGCUGUUUGCCUAUCCGUGAGUGUG-----UA
....((((((((((..((..........))..)))))).-))))....(((((((((........(((.....))).....)))))))))-----.. ( -33.72)
>DroSec_CAF1 2636 91 - 1
UCAAUGUUGGGGCUGAGCAGGAUCCAAAGCCAAGCCCCA-AACAAAACCACACUCACAUGCUUGUGGCUGUUUGCCUCUCCGUGAGUGUG-----AA
....((((((((((..((..........))..)))))).-))))....(((((((((......(.(((.....))).)...)))))))))-----.. ( -36.00)
>DroSim_CAF1 2637 91 - 1
UCAAUGUUGGGGCUGUGCAGGAUCCAAAGCCAAGCCCCA-AACAAAACCACACUCACAUGCUUGUGGCUGUUUGCCUAUCCGUGAGUGUG-----AA
....((((((((((..((..........))..)))))).-))))....(((((((((........(((.....))).....)))))))))-----.. ( -34.22)
>DroEre_CAF1 2670 91 - 1
UCAAUGUUGGUGCUGUGCAGGAUCCAAAGCCAAGCCCCA-AACAAAACCACACUCACAUGCUUGUGGCUGUUUGCCUAUCUGUGAGUGUG-----AA
....((((((.(((..((..........))..))).)).-))))....((((((((((.......(((.....)))....))))))))))-----.. ( -28.70)
>DroWil_CAF1 2819 85 - 1
UCAAUGUUGU------------GCCAAAGCUAAGCCCCAAAACAAAACCACAUGCACACGCCUGUGGCCAACUACAUAUGGGUGAGUGUAUGGCGAA
.........(------------((((..(((..((((..........(((((.((....)).)))))............)))).)))...))))).. ( -22.15)
>DroAna_CAF1 2533 89 - 1
UCAAUGUUGGUGCUGUGCCGGAUCCGAAGCCAAGCCCCA-AACAAAACCACAUGCACAUGCUUGUGGCUGUUGGCCCAACUGUGCGAGUG-------
....((((((.(((..((((....))..))..))).)).-))))....(((.((((((.(.(((.(((.....))))))))))))).)))------- ( -27.50)
>consensus
UCAAUGUUGGGGCUGUGCAGGAUCCAAAGCCAAGCCCCA_AACAAAACCACACUCACAUGCUUGUGGCUGUUUGCCUAUCCGUGAGUGUG_____AA
....((((((.(((..((..........))..))).)))..)))....(((((((((........(((.....))).....)))))))))....... (-17.56 = -18.95 +   1.39)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:14:33 2006