Locus 5368

Sequence ID 3R_DroMel_CAF1
Location 14,100,677 – 14,100,837
Length 160
Max. P 0.753403
window8748 window8749

overview

Window 8

Location 14,100,677 – 14,100,797
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 89.67
Mean single sequence MFE -27.71
Consensus MFE -22.85
Energy contribution -22.02
Covariance contribution -0.83
Combinations/Pair 1.29
Mean z-score -1.78
Structure conservation index 0.82
SVM decision value 0.00
SVM RNA-class probability 0.535861
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14100677 120 - 27905053
ACGACCGUUGCCCAGCAUCUUGGUCACCUGCGCGUACUCCUGUUGGUCCUCCUUGAAGAUCAGCUCACGCUUCUCGAACUCGUUCUCGUUCUUACCACGACGACGAUUCUUGCCUCCUUU
..(((((.(((...)))...)))))....((((((......(((((((.((...)).)))))))..)))).....(((.(((((.((((.......)))).))))))))..))....... ( -30.90)
>DroVir_CAF1 23 120 - 1
GCGACCAUUGCCCAGCAUUUUGGUCACCUGUGCGUAUUCCUGUUGAUCCUCUUUGAAGAUCAGUUCACGCUUUUCGAAUUCGUUUUCAUUCUUUCCACGACGACGAUUUUUGCCACCUUU
..(((((.(((...)))...)))))....(((.(((.((.(((((........(((((((.(((((.........))))).))))))).........)))))..))....)))))).... ( -23.43)
>DroGri_CAF1 234 120 - 1
GCGACCGUUGCCCAGCAUUUUGGUCACCUGUGCGUACUCUUGUUGAUCCUCUUUGAAGAUCAGUUCACGCUUCUCGAACUCAUUUUCAUUCUUUCCACGACGACGAUUUUUACCACCUUU
..(((((.(((...)))...)))))....(((.(((.((((((((........(((((((.(((((.........))))).))))))).........)))))).))....)))))).... ( -25.93)
>DroWil_CAF1 19 120 - 1
ACGACCAUUGCCCAGCAUUUUGGUCACUUGAGCGUACUCCUGUUGAUCCUCCUUAAAGAUCAAUUCACGUUUCUCGAAUUCAUUCUCGUUCUUACCACGACGACGAUUUUUGCCACCUUU
..(((((.(((...)))...)))))..(((((...((....(((((((.........)))))))....))..)))))......(((((((........))))).)).............. ( -23.00)
>DroMoj_CAF1 238 120 - 1
GCGACCAUUGCCCAGCAUUUUGGUCACCUGUGCGUAUUCCUGUUGAUCCUCUUUAAAGAUCAGCUCACGUUUUUCGAACUCGUUUUCGUUCUUUCCACGACGACGAUUUUUGCCACCUUU
..(((((.(((...)))...)))))....(((.(((.....(((((((.........)))))))...........(((.(((((.((((.......)))).))))).))))))))).... ( -28.00)
>DroAna_CAF1 142 120 - 1
CCGACCGUUGCCCAGCAUCUUGGUCACCUGCGCGUAUUCCUGCUGGUCCUCCUUGAAGAUCAGCUCGCGCUUUUCGAACUCGUUCUCGUUCUUACCACGACGACGGUUUUUGCCACCUUU
..(((((.(((...)))...)))))....(((((.......(((((((.((...)).))))))).))))).....((((.((((.((((.......)))).))))))))........... ( -35.00)
>consensus
GCGACCAUUGCCCAGCAUUUUGGUCACCUGUGCGUACUCCUGUUGAUCCUCCUUGAAGAUCAGCUCACGCUUCUCGAACUCGUUCUCGUUCUUACCACGACGACGAUUUUUGCCACCUUU
..(((((.(((...)))...)))))......((((......(((((((.........)))))))..)))).........(((((.((((.......)))).))))).............. (-22.85 = -22.02 +  -0.83)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 9

Location 14,100,717 – 14,100,837
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 91.50
Mean single sequence MFE -38.15
Consensus MFE -35.42
Energy contribution -34.53
Covariance contribution -0.89
Combinations/Pair 1.23
Mean z-score -1.19
Structure conservation index 0.93
SVM decision value 0.48
SVM RNA-class probability 0.753403
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14100717 120 + 27905053
AGUUCGAGAAGCGUGAGCUGAUCUUCAAGGAGGACCAACAGGAGUACGCGCAGGUGACCAAGAUGCUGGGCAACGGUCGUCUGGAGGCAAUGUGCUUUGAUGGCGUCAAACGCCUGUGUC
.((((((..(((....)))..))((....))))))..(((((.((((((.(((..((((....(((...)))..))))..)))(((((.....)))))....))))...)).)))))... ( -39.30)
>DroVir_CAF1 63 120 + 1
AAUUCGAAAAGCGUGAACUGAUCUUCAAAGAGGAUCAACAGGAAUACGCACAGGUGACCAAAAUGCUGGGCAAUGGUCGCUUGGAGGCAAUGUGCUUUGAUGGCGUCAAACGUCUGUGUC
..................((((((((...))))))))(((((...((((.((((((((((...(((...))).))))))))))(((((.....)))))....))))......)))))... ( -37.50)
>DroGri_CAF1 274 120 + 1
AGUUCGAGAAGCGUGAACUGAUCUUCAAAGAGGAUCAACAAGAGUACGCACAGGUGACCAAAAUGCUGGGCAACGGUCGCUUGGAGGCAAUGUGCUUUGAUGGCGUCAAACGUCUGUGUC
((((((.......))))))(((((((...))))))).((((((((((((.(((((((((....(((...)))..)))))))))...))...)))))))...((((.....)))))))... ( -37.70)
>DroWil_CAF1 59 120 + 1
AAUUCGAGAAACGUGAAUUGAUCUUUAAGGAGGAUCAACAGGAGUACGCUCAAGUGACCAAAAUGCUGGGCAAUGGUCGUUUGGAGGCAAUGUGCUUUGAUGGCGUCAAACGUCUGUGUC
((((((.......))))))(((((((...))))))).((((..(((((((((((((((((...(((...))).))))))))))(((((.....)))))...)))))...))..))))... ( -33.20)
>DroMoj_CAF1 278 120 + 1
AGUUCGAAAAACGUGAGCUGAUCUUUAAAGAGGAUCAACAGGAAUACGCACAGGUGACCAAAAUGCUGGGCAAUGGUCGCCUGGAGGCAAUGUGCUUUGAUGGCGUCAAACGUCUGUGUC
((((((.......))))))(((((((...))))))).(((((...((((.((((((((((...(((...))).))))))))))(((((.....)))))....))))......)))))... ( -41.40)
>DroAna_CAF1 182 120 + 1
AGUUCGAAAAGCGCGAGCUGAUCUUCAAGGAGGACCAGCAGGAAUACGCGCAGGUGACCAAGAUGCUGGGCAACGGUCGGUUGGAGGCAAUGUGCUUUGAUGGCGUCAAGCGCCUGUGUC
...(((.......)))((((.(((((...))))).))))........(((((((((.....((((((...((((.....))))(((((.....)))))...))))))...))))))))). ( -39.80)
>consensus
AGUUCGAAAAGCGUGAACUGAUCUUCAAAGAGGAUCAACAGGAAUACGCACAGGUGACCAAAAUGCUGGGCAACGGUCGCUUGGAGGCAAUGUGCUUUGAUGGCGUCAAACGUCUGUGUC
((((((.......))))))(((((((...))))))).(((((...((((.(((((((((....(((...)))..)))))))))(((((.....)))))....))))......)))))... (-35.42 = -34.53 +  -0.89)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:53:04 2006