Locus 4381

Sequence ID	3R_DroMel_CAF1
Location	11,575,023 – 11,575,123
Length	100
Max. P	0.995234

overview

Window 7

Location	11,575,023 – 11,575,123
Length	100
Sequences	5
Columns	100
Reading direction	forward
Mean pairwise identity	91.80
Mean single sequence MFE	-24.12
Consensus MFE	-21.96
Energy contribution	-21.80
Covariance contribution	-0.16
Combinations/Pair	1.14
Mean z-score	-1.91
Structure conservation index	0.91
SVM decision value	2.55
SVM RNA-class probability	0.995234
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11575023 100 + 27905053
UUCGUUUUCAAUCUCCAGGUCCACAAUUUCAUCCAUUACCCGGGAAUUUCAAGUGCUAGACCCCAGAGGUACGCACUUUAACCACAAUUGGCGGCCAUUU
.................((((..(((((...(((........))).....((((((...(((.....)))..)))))).......)))))..)))).... ( -20.50)
>DroSec_CAF1 104091 100 + 1
UUCGUUUUCAAUUUCCAGGUCUACAAUUUCAUCCAUAGCCCGGGCAUUUCAAGUGCUGGACCCCAGAGGUCCACACUUUAACCACAAUUGGCGGCCAUUU
.................((((..(((((.........((....)).....(((((.((((((.....))))))))))).......)))))..)))).... ( -26.00)
>DroSim_CAF1 108036 100 + 1
UUCGUUUUCAAUUUCCAGGUCUACAAUUUCAUCCAUUACCCGGGCAUUUCAAGUGCUGGACCCCAGAGGUCCGCACUUUAACCACAAUUGGCGGCCAUUU
.................((((..(((((...(((.......)))......((((((.(((((.....))))))))))).......)))))..)))).... ( -25.60)
>DroEre_CAF1 107250 100 + 1
UUCGCUCUCAAUCUCCAGGCUUACAAUUUCAACCAUUACUCGGGCAUUUCAAGUGCUGGACCCCAGAGGUCCGCACUUCAACCACAAUUGGCGGCCAUUU
.................((((..(((((....((.......)).......((((((.(((((.....))))))))))).......)))))..)))).... ( -26.40)
>DroYak_CAF1 105090 100 + 1
UUCGUUUCCACUCUCCAGGUUUACAAUUUCAUCCAUUACUCGGGCAAUUCAAGUGUUGGACCCCAGAGGUCCGCACUUUAACCACAAUUGGCGGCCAUUU
...((..((........))...))..................(((.....((((((.(((((.....)))))))))))...(((....)))..))).... ( -22.10)
>consensus
UUCGUUUUCAAUCUCCAGGUCUACAAUUUCAUCCAUUACCCGGGCAUUUCAAGUGCUGGACCCCAGAGGUCCGCACUUUAACCACAAUUGGCGGCCAUUU
.................((((..(((((....((.......)).......(((((.((((((.....))))))))))).......)))))..)))).... (-21.96 = -21.80 +  -0.16)

alignment

secondary structure

dotplot

Window 8

Location	11,575,023 – 11,575,123
Length	100
Sequences	5
Columns	100
Reading direction	reverse
Mean pairwise identity	91.80
Mean single sequence MFE	-30.24
Consensus MFE	-25.99
Energy contribution	-26.11
Covariance contribution	0.12
Combinations/Pair	1.19
Mean z-score	-1.85
Structure conservation index	0.86
SVM decision value	1.74
SVM RNA-class probability	0.974757
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11575023 100 - 27905053
AAAUGGCCGCCAAUUGUGGUUAAAGUGCGUACCUCUGGGGUCUAGCACUUGAAAUUCCCGGGUAAUGGAUGAAAUUGUGGACCUGGAGAUUGAAAACGAA
...(((((((.....)))))))((((((..(((.....)))...))))))..(((..((((((.(..(......)..)..))))))..)))......... ( -28.80)
>DroSec_CAF1 104091 100 - 1
AAAUGGCCGCCAAUUGUGGUUAAAGUGUGGACCUCUGGGGUCCAGCACUUGAAAUGCCCGGGCUAUGGAUGAAAUUGUAGACCUGGAAAUUGAAAACGAA
...(((((((.....)))))))(((((((((((.....)))))).)))))..(((..((((((((..(......)..))).)))))..)))......... ( -34.40)
>DroSim_CAF1 108036 100 - 1
AAAUGGCCGCCAAUUGUGGUUAAAGUGCGGACCUCUGGGGUCCAGCACUUGAAAUGCCCGGGUAAUGGAUGAAAUUGUAGACCUGGAAAUUGAAAACGAA
...(((((((.....)))))))(((((((((((.....))))).))))))..(((..((((((..((.(......).)).))))))..)))......... ( -32.10)
>DroEre_CAF1 107250 100 - 1
AAAUGGCCGCCAAUUGUGGUUGAAGUGCGGACCUCUGGGGUCCAGCACUUGAAAUGCCCGAGUAAUGGUUGAAAUUGUAAGCCUGGAGAUUGAGAGCGAA
....((((((.....)))))).(((((((((((.....))))).))))))....(((((((.....((((.........))))......))).).))).. ( -29.60)
>DroYak_CAF1 105090 100 - 1
AAAUGGCCGCCAAUUGUGGUUAAAGUGCGGACCUCUGGGGUCCAACACUUGAAUUGCCCGAGUAAUGGAUGAAAUUGUAAACCUGGAGAGUGGAAACGAA
...(((((((.....)))))))........(((((..(((((((..(((((.......)))))..)))))...........))..))).))(....)... ( -26.30)
>consensus
AAAUGGCCGCCAAUUGUGGUUAAAGUGCGGACCUCUGGGGUCCAGCACUUGAAAUGCCCGGGUAAUGGAUGAAAUUGUAGACCUGGAGAUUGAAAACGAA
...(((((((.....)))))))(((((((((((.....))))).))))))..(((..((((((.................))))))..)))......... (-25.99 = -26.11 +   0.12)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:27:42 2006