Locus 476

Sequence ID 3R_DroMel_CAF1
Location 1,779,118 – 1,779,237
Length 119
Max. P 0.981929
window769 window770

overview

Window 9

Location 1,779,118 – 1,779,208
Length 90
Sequences 6
Columns 92
Reading direction forward
Mean pairwise identity 73.22
Mean single sequence MFE -21.36
Consensus MFE -6.57
Energy contribution -6.43
Covariance contribution -0.14
Combinations/Pair 1.14
Mean z-score -2.89
Structure conservation index 0.31
SVM decision value 1.90
SVM RNA-class probability 0.981929
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1779118 90 + 27905053
CU-ACCUUCAUAUCAAAUGUGC-UCACACCCGCAGGAGCACAUACCACAUACCACUGCGCCAUACACGGCGUAUACUUGAUGUGUUUUAAAA
..-.....((((((((((((((-((.(.......)))))))))............((((((......))))))...))))))))........ ( -27.40)
>DroVir_CAF1 104623 80 + 1
CAAACCUUCAUAUCAAAUGUGUCUUGCACACGUAUAAACA-ACGCC--------C-G--GCGAACGGGACGUAUGCUUGAUGUGUUUUUAAA
........((((((((((((((.....)))))).......-(((((--------(-(--.....)))).)))....))))))))........ ( -22.30)
>DroGri_CAF1 90654 83 + 1
CA-ACCUUCAUACCAAAUGUGUCUUGCACACGUAAAAACAAACGCC--------CUGGCGCAAACGGGACGUAUGCUUGAUGUGUUUUUAAA
..-...........(((((..((..(((.((((.........(((.--------...)))........)))).)))..))..)))))..... ( -18.23)
>DroYak_CAF1 87758 90 + 1
CU-ACCUUCAUAUCAAAUGUGC-UCACACCCGCCGAAGCACAUGCCACAUACCACUGCGCCAUACACGGCGUAUGCUUGAUGUGUUUUAAAA
..-.....((((((((((((((-((.........).)))))))............((((((......))))))...))))))))........ ( -23.60)
>DroMoj_CAF1 96045 79 + 1
CA-ACCUUCAUAUCAAAUGUGUCUUGCACACGUAUAAACA-ACGCC--------U-G--GCAAACGGGACGUAUGCUUGAUGUGUUUUUAAA
..-.....((((((((((((((.....)))))).......-(((((--------(-(--.....)))).)))....))))))))........ ( -20.10)
>DroAna_CAF1 81592 78 + 1
CU-ACCUUCAUAUCAAAUGUGU-UGUUCCCCACACUCACACAUCCCGCA------------CUACCGGGCGUAUACUUGAUGUGUUUUAAAA
..-.....((((((((((((((-(((.....)))...))))))((((..------------....)))).......))))))))........ ( -16.50)
>consensus
CA_ACCUUCAUAUCAAAUGUGU_UUGCACACGCAGAAACACACGCC________C_G__GCAAACGGGACGUAUGCUUGAUGUGUUUUAAAA
........((((((((..(((.....))).(((...................................))).....))))))))........ ( -6.57 =  -6.43 +  -0.14)

alignment

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secondary structure

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dotplot

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Window 0

Location 1,779,139 – 1,779,237
Length 98
Sequences 6
Columns 102
Reading direction forward
Mean pairwise identity 80.30
Mean single sequence MFE -26.95
Consensus MFE -17.51
Energy contribution -17.90
Covariance contribution 0.39
Combinations/Pair 1.27
Mean z-score -1.42
Structure conservation index 0.65
SVM decision value 0.08
SVM RNA-class probability 0.571747
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1779139 98 + 27905053
UCACACCCGCAGGAGCACAUACCACAUACCACUGCGCCAUACACGGCGUAUACUUGAUGUGUUUUAAAAGUGUGUGUUUAUUCUCAGC----ACAAUGGCCG
........((..(((((((((((((((.....((((((......))))))......)))))........)))))))))).....((..----....)))).. ( -24.90)
>DroGri_CAF1 90676 90 + 1
UUGCACACGUAAAAACAAACGCC--------CUGGCGCAAACGGGACGUAUGCUUGAUGUGUUUUUAAAGUGUGUGUUUAUGCGAUGC----ACAAUGGUCG
..((((((.((((((((...((.--------...))(((.(((...))).)))......))))))))..)))))).......((((..----......)))) ( -22.10)
>DroSim_CAF1 90548 98 + 1
UCACACCCGCAGGAGCACAUACCACAUACCACUGCGCCAUACACGGCGUAUACUUGAUGUGUUUUAAAAGUGUGUGUUUAUGCCCAGC----ACAAUGGCCG
........(((.(((((((((((((((.....((((((......))))))......)))))........)))))))))).)))(((..----....)))... ( -30.20)
>DroEre_CAF1 86579 98 + 1
UCACACCCGCAGAAGCACAUGCCACAUACCACUGCGCCAUACACGGCGUAUGCUUGAUGUGUUUUAAAAGUGUGUGUUUAUGCCCAGC----ACAAUGGCCG
........(((.(((((((((((((((..((.((((((......))))))))....)))))........)))))))))).)))(((..----....)))... ( -29.00)
>DroYak_CAF1 87779 102 + 1
UCACACCCGCCGAAGCACAUGCCACAUACCACUGCGCCAUACACGGCGUAUGCUUGAUGUGUUUUAAAAGUGUGUGUUUAUGCCCAGCCAGAACAAUGGCCG
........((..(((((((((((((((..((.((((((......))))))))....)))))........))))))))))..))...((((......)))).. ( -30.30)
>DroMoj_CAF1 96067 86 + 1
UUGCACACGUAUAAACA-ACGCC--------U-G--GCAAACGGGACGUAUGCUUGAUGUGUUUUUAAAGUGUGUGUUUAUGCGAUGC----ACAAUGGCCG
.((((..((((((((((-(((((--------(-(--.....)))).)))((((((............)))))).)))))))))).)))----)......... ( -25.20)
>consensus
UCACACCCGCAGAAGCACAUGCCACAUACCACUGCGCCAUACACGGCGUAUGCUUGAUGUGUUUUAAAAGUGUGUGUUUAUGCCCAGC____ACAAUGGCCG
........(((.((((((((((...........(((((......)))))((((.....)))).......)))))))))).)))................... (-17.51 = -17.90 +   0.39)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:44:07 2006