Locus 4548

Sequence ID 2R_DroMel_CAF1
Location 14,875,593 – 14,875,742
Length 149
Max. P 0.716251
window7291 window7292

overview

Window 1

Location 14,875,593 – 14,875,702
Length 109
Sequences 6
Columns 109
Reading direction reverse
Mean pairwise identity 75.60
Mean single sequence MFE -26.87
Consensus MFE -16.27
Energy contribution -16.38
Covariance contribution 0.11
Combinations/Pair 1.19
Mean z-score -1.48
Structure conservation index 0.61
SVM decision value 0.39
SVM RNA-class probability 0.716251
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14875593 109 - 20766785
GGGUGAGAACAGAUAAAAGUAGGCAGUGGCAGUGCAGCAAAAGCUGAACCCGCUGACCAAUGGGAAGCUUAUCCUGAAAAAAGAUUUAGCUUUAGUCAACCAAUAAAUC
((((....)).(((.(((((.((((((((..((.((((....)))).)))))))).))...((((......)))).............))))).)))..))........ ( -29.30)
>DroPse_CAF1 54166 103 - 1
UGGUGAAGAUGGCCAGGAAGAGGCAGUGACAGUGCAGCAGCAUCUGGACCCGCUGUCCAAUGGGCAGUUUGUCCUGGAAAAG-AAAUAAA----AUCAA-AUAUGAAUA
((((........((((((...((..((..((((((....))).))).))))(((((((...)))))))...)))))).....-.......----)))).-......... ( -25.85)
>DroSim_CAF1 49655 108 - 1
GGGUAAGAACGGAUAAGAGGAUGCAGUGGCAGUGCAGCAAAAGCUGAACCCGCUGACCAAUGGGAAGCUUAUCCUGAAAAA-AAUGUAGCGUUAGUCAUACAAUAAAUC
..........(((((((....(.((.((((((((((((....))))....))))).))).)).)...))))))).......-..((((((....))..))))....... ( -26.20)
>DroEre_CAF1 48169 108 - 1
GGGCAAGAACGGAUAAAAGCACGCAGUGGCAGUGCAGCAAAAGCUGAAUCCGCUGGCCAAUGGGAAGCUUAUCCUGGAAUAA-AAAUAAUGUUAGUUAAACAGUGAAAC
..((......(((((..(((.(.((.((((((((((((....))))....)))).)))).)).)..))))))))........-......((((.....))))))..... ( -25.20)
>DroYak_CAF1 49488 109 - 1
GGGUGAGGACGGACAGAAGCACGCAGUGGCAGUGCAGCAAAAGCUGAAUCCGCUGGCCAAUGGGAAGCUUAUCCUGAAAAGGGAUUUAAAUUUAGUCAAAAGAUUAAAC
.(((.((..((((.....((((((....)).))))(((....)))...)))))).))).............((((....)))).......(((((((....))))))). ( -28.80)
>DroPer_CAF1 51012 103 - 1
UGGUGAAGAUGGCCAGGAAGAGGCAGUGACAGUGCAGCAGCAUCUGGACCCGCUGUCCAAUGGGCAGUUUGUCCUGGAAAAG-AAAUAAA----AUCAA-AGAUGAAUA
((((........((((((...((..((..((((((....))).))).))))(((((((...)))))))...)))))).....-.......----)))).-......... ( -25.85)
>consensus
GGGUGAGAACGGACAAAAGGAGGCAGUGGCAGUGCAGCAAAAGCUGAACCCGCUGACCAAUGGGAAGCUUAUCCUGAAAAAG_AAAUAAA_UUAGUCAAAAAAUGAAUC
(((((((................((((((..((.((((....)))).)))))))).((....))...)))))))................................... (-16.27 = -16.38 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 14,875,622 – 14,875,742
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 75.83
Mean single sequence MFE -35.18
Consensus MFE -16.71
Energy contribution -16.77
Covariance contribution 0.06
Combinations/Pair 1.38
Mean z-score -1.95
Structure conservation index 0.47
SVM decision value 0.38
SVM RNA-class probability 0.712491
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14875622 120 - 20766785
AAAACAAAAACAGAGCGAAUUCCACAGAUGGUGAAGAUCAGGGUGAGAACAGAUAAAAGUAGGCAGUGGCAGUGCAGCAAAAGCUGAACCCGCUGACCAAUGGGAAGCUUAUCCUGAAAA
......................(((.....)))....((((((((((.((........)).((((((((..((.((((....)))).)))))))).)).........))))))))))... ( -32.60)
>DroGri_CAF1 51911 120 - 1
AGCACAAAUGCAGAGCGAAUACCACAGGUGGUUAGGACCAGAGUGAGCAGUGCCAGAAGCAGGCAAUGGCAAUGCAGCAGCAGCUGUACACGCUGCCCAAUGGGGAAGCGAUCCUGUGGA
.(((....)))..........(((((((((((....))))..(((.((..((((.......))))...))..((((((....)))))))))(((.(((....))).)))...))))))). ( -45.50)
>DroSec_CAF1 47451 118 - 1
AGGACAAAAACAGAGCGAAUUCCGCAGAUGGUAAAGAUCAGGGUAAGAACGGAUAAGAGGAUGCAGUGGCAGUGCAGCAA-AGCUGAACCCGCUGACCAAUGGGAAGCUUAUC-UGAAAA
..........((((.....((((.((..((((....(((.(........).))).........((((((..((.((((..-.)))).)))))))))))).)))))).....))-)).... ( -29.20)
>DroWil_CAF1 81512 120 - 1
AACACGAAAGCCGAACGAAUGCCACAGAUGGUCAAGACCAGGGUAAGCAAGGCCAAGAAGAGGCAAUGCGAAUGCAACAACAAUUGCACACGUUGGCCAAGUGGAAGUUUAUCCUAGAAC
..(((....(((.((((..((((.....((((....)))).)))).(((..(((.......)))..)))...(((((......)))))..)))))))...)))................. ( -31.90)
>DroYak_CAF1 49517 120 - 1
AGGACAAAAACAGAUCGAAUUCCACAGAUGGUGAAGAUCAGGGUGAGGACGGACAGAAGCACGCAGUGGCAGUGCAGCAAAAGCUGAAUCCGCUGGCCAAUGGGAAGCUUAUCCUGAAAA
.(..(..(..(.((((.....(((....)))....)))).)..)..)..)(((...((((.(.((.((((((((((((....))))....)))).)))).)).)..)))).)))...... ( -31.60)
>DroMoj_CAF1 73795 120 - 1
AACACAAAUGCCGAGCGGAUGCUGCAGAUGGUCAGCACCAGGGUGAGCAGCGCCAGGAAGAGGCAAUGGCAGUGCAACAACAGCUGCACACGUUGUCCAAUGGGCAGGCGAUCCUGGAGA
..........((....)).((((((.....).)))))(((((((..(((((((((...........)))).((......)).)))))...((((((((...))))).))))))))))... ( -40.30)
>consensus
AACACAAAAACAGAGCGAAUUCCACAGAUGGUCAAGACCAGGGUGAGCACGGACAAAAGGAGGCAAUGGCAGUGCAGCAACAGCUGAACACGCUGACCAAUGGGAAGCUUAUCCUGAAAA
...................(((((....))).))...((((((((((................(((((......((((....))))....))))).((....))...))))))))))... (-16.71 = -16.77 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:22:48 2006