Locus 5964

Sequence ID	3R_DroMel_CAF1
Location	15,742,258 – 15,742,370
Length	112
Max. P	0.940439

overview

Window 9

Location	15,742,258 – 15,742,370
Length	112
Sequences	6
Columns	118
Reading direction	forward
Mean pairwise identity	74.80
Mean single sequence MFE	-42.40
Consensus MFE	-19.44
Energy contribution	-20.67
Covariance contribution	1.23
Combinations/Pair	1.32
Mean z-score	-2.02
Structure conservation index	0.46
SVM decision value	0.62
SVM RNA-class probability	0.801941
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15742258 112 + 27905053
AGCCCAGUGUUGACCACCAUGAAGGUGGCAAGUGCCAUGUGCACGGCCACCAAGUGGAAAG------UACUCCUACGCUGGCCCAUCCACAAGUGCAUCCAAUGCACGGCGGGCAUUG
.((((....(((.(((((.....))))))))..(((.((((...(((((....(((((...------...))).))..)))))....)))).((((((...))))))))))))).... ( -46.70)
>DroVir_CAF1 14310 112 + 1
AGACCCAUGUGGCUGAUCAGAAAGGUGGCCAGUGCCAUGUGCGUCGCCAGCAUAUGGAGCU------UGGCUUGCGGAUGGCCAUGCCAGAGCUCCAGCCAACGUGCGGACGCAGGCU
...((((((((((((...........(((((((.((((((((.......)))))))).)).------))))).((...((((...))))..))..))))).))))).))......... ( -45.50)
>DroSim_CAF1 10902 112 + 1
AGCCCAGUGUUGACUACCAUGAAGGUGGCCAGUGCCAUGUGCACGGCCACCAAGUGGAAAG------UACUCUUGCGCUGGCCCAUCCACAAGUGCAUCCAAUGCACUGCGGGCAUUG
.(((((((((..(((.((((...(((((((.((((.....)))))))))))..))))..))------)......))))))).....((.((.((((((...)))))))).)))).... ( -47.50)
>DroEre_CAF1 10724 112 + 1
AGCCCAGUGUUGACCACCAUGAAGGUGGCCAGUGCCAUGUGCACAGCCACCAAGCGGAAAG------UACUCCUGCGCUGCCCCAUCCACAAGUGCAUCCAAUGCGCUGCGGGCAUGG
.((((.(((.((...........((((((..((((.....)))).))))))..((((...(------((....))).))))..))..))).(((((((...)))))))..)))).... ( -41.30)
>DroYak_CAF1 11017 112 + 1
AGCCCGGUGUUGACCACCAUGAAAGUGGCUAGUGCCAUGUGCACAGCCACCAAGUGGAAAG------UACUCUUCCGCUGCCCCAUCCACAAAUGCAUCCAAUGCACUGCGGGCAUUG
.((((((((.....))))(((...((((((.((((.....))))))))))..(((((((..------.....)))))))....))).......(((((...)))))....)))).... ( -39.60)
>DroAna_CAF1 10860 118 + 1
AGUCCAGUGUGCACUAUCAUAAAAGUGGCCAACGCCAUGUGGACAGCCACCAAAUGGAAGCUGGCUUUCCUCUUCUUCUGCCCCAGCCACAAAUCCAUCCACUGGACGGAGUGCGUGU
......(..(((((..........(((((....((...(.(((.(((((((....))....))))).))).).......))....)))))...(((.(((...))).))))))))..) ( -33.80)
>consensus
AGCCCAGUGUUGACCACCAUGAAGGUGGCCAGUGCCAUGUGCACAGCCACCAAGUGGAAAG______UACUCUUCCGCUGCCCCAUCCACAAGUGCAUCCAAUGCACGGCGGGCAUUG
.((((...........((((...((((((..((((.....)))).))))))..))))....................................((((.....))))....)))).... (-19.44 = -20.67 +   1.23)

alignment

secondary structure

dotplot

Window 0

Location	15,742,258 – 15,742,370
Length	112
Sequences	6
Columns	118
Reading direction	reverse
Mean pairwise identity	74.80
Mean single sequence MFE	-46.83
Consensus MFE	-22.22
Energy contribution	-23.45
Covariance contribution	1.23
Combinations/Pair	1.44
Mean z-score	-2.25
Structure conservation index	0.47
SVM decision value	1.31
SVM RNA-class probability	0.940439
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15742258 112 - 27905053
CAAUGCCCGCCGUGCAUUGGAUGCACUUGUGGAUGGGCCAGCGUAGGAGUA------CUUUCCACUUGGUGGCCGUGCACAUGGCACUUGCCACCUUCAUGGUGGUCAACACUGGGCU
....(((((((((((((...)))))).((((.((((.(((.((..((((..------..))))...)).))))))).)))).)))..((((((((.....))))).)))....)))). ( -51.00)
>DroVir_CAF1 14310 112 - 1
AGCCUGCGUCCGCACGUUGGCUGGAGCUCUGGCAUGGCCAUCCGCAAGCCA------AGCUCCAUAUGCUGGCGACGCACAUGGCACUGGCCACCUUUCUGAUCAGCCACAUGGGUCU
.(((((((((.....((..(((((((((.((((...((.....))..))))------)))))))...))..))))))))((((...(((..((......))..)))...))))))).. ( -44.30)
>DroSim_CAF1 10902 112 - 1
CAAUGCCCGCAGUGCAUUGGAUGCACUUGUGGAUGGGCCAGCGCAAGAGUA------CUUUCCACUUGGUGGCCGUGCACAUGGCACUGGCCACCUUCAUGGUAGUCAACACUGGGCU
......(((((((((((...)))))).)))))..((.((((.(...((.((------((........(((((((((((.....)))).))))))).....)))).))..).)))).)) ( -47.72)
>DroEre_CAF1 10724 112 - 1
CCAUGCCCGCAGCGCAUUGGAUGCACUUGUGGAUGGGGCAGCGCAGGAGUA------CUUUCCGCUUGGUGGCUGUGCACAUGGCACUGGCCACCUUCAUGGUGGUCAACACUGGGCU
...(((((.((.((((.((....))..))))..))))))).....((((..------..))))(((..(((...((((.....))))((((((((.....)))))))).)))..))). ( -48.00)
>DroYak_CAF1 11017 112 - 1
CAAUGCCCGCAGUGCAUUGGAUGCAUUUGUGGAUGGGGCAGCGGAAGAGUA------CUUUCCACUUGGUGGCUGUGCACAUGGCACUAGCCACUUUCAUGGUGGUCAACACCGGGCU
....((((..(((((((...))))))).(((((.((..(..(....).)..------)).)))))..(((((((((((.....)))).))))))).....((((.....)))))))). ( -46.10)
>DroAna_CAF1 10860 118 - 1
ACACGCACUCCGUCCAGUGGAUGGAUUUGUGGCUGGGGCAGAAGAAGAGGAAAGCCAGCUUCCAUUUGGUGGCUGUCCACAUGGCGUUGGCCACUUUUAUGAUAGUGCACACUGGACU
....(((((((((((...)))))))...(((((..(.((.........(((.(((((.(........).))))).))).....)).)..)))))..........)))).......... ( -43.84)
>consensus
CAAUGCCCGCAGUGCAUUGGAUGCACUUGUGGAUGGGCCAGCGGAAGAGUA______CUUUCCACUUGGUGGCUGUGCACAUGGCACUGGCCACCUUCAUGGUGGUCAACACUGGGCU
....((((...(((((.....)))))..(((((...........................)))))..(((((((((((.....)))).)))))))..................)))). (-22.22 = -23.45 +   1.23)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:09:07 2006