Locus 9589

Sequence ID	3R_DroMel_CAF1
Location	25,337,788 – 25,337,879
Length	91
Max. P	0.985696

overview

Window 6

Location	25,337,788 – 25,337,879
Length	91
Sequences	6
Columns	111
Reading direction	forward
Mean pairwise identity	71.53
Mean single sequence MFE	-31.99
Consensus MFE	-17.90
Energy contribution	-18.79
Covariance contribution	0.89
Combinations/Pair	1.11
Mean z-score	-2.02
Structure conservation index	0.56
SVM decision value	1.71
SVM RNA-class probability	0.973157
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25337788 91 + 27905053
GAUCGAAUUAUUCGCAAAUUAAGCAG-------------AAACAGCAGACGCUUGCCACGCCCCCAAGUCGCCA-------AAAACAAAGGGGCGGUGCUGCUAUGGUCGA
(((((.....(((((.......)).)-------------))..(((((.(((......((((((...((.....-------...))...)))))))))))))).))))).. ( -25.70)
>DroSec_CAF1 22781 90 + 1
GAUCGAAUUAUUCGCAAAUUAAGCAG-------------AAACAGCAGGCGCUCGCCACGCCCCCCAGCCCCCA--------AGGCAAGGGGGCGGUGCUGCUAUGGUCGA
(((((.....(((((.......)).)-------------)).((((((((....))).(((((((..(((....--------.)))..))))))).)))))...))))).. ( -39.10)
>DroSim_CAF1 23171 89 + 1
GAUCGAAUUAUUCGCAAAUUAAGCAG-------------AAACAGCAGGCGCUCGCCACGCCCCCCAGCCCCCA--------ACGCAAGGGGGC-GUGCUGCUAUGGUCGA
(((((.....(((((.......)).)-------------)).((((.(((....)))((((((((..((.....--------..))..))))))-))))))...))))).. ( -35.40)
>DroEre_CAF1 22961 102 + 1
GAUCGAAUUAUUCGCAAAUUAGGCAGCACACUUGGCUGGAAACAGCAGGCGGCCGCCACGCCCCCA---------GAGGCCAAAACAAAGGGGCGGAGCUGCCAUGCUCGA
..((((.......(((.....((((((.......((((....)))).(((....))).((((((..---------..............))))))..)))))).))))))) ( -39.50)
>DroYak_CAF1 24548 111 + 1
GAUCGAAUUAUUCGCAAAUUAAGCAGAACACUUGGCUGAAAACAGCAGGCGCUCGCCACGCCCCCAACCCCCCAAAAGCCGAAAACAAAGAGGCGUGGCUGCCAUGCUCGA
..................(..((((.........((((....)))).((((...((((((((.............................)))))))))))).))))..) ( -28.45)
>DroAna_CAF1 28728 92 + 1
UAUUGAAUCAUUCGCCAAUUAAGCGAAGCAGUUAGCUGAAAACAGCAGGCACUUGCCACGCCCCCAA-------------------AAUGAGGCAGAGGGGUUAUGCUUGA
..........(((((.......)))))(((....((((....)))).(((....)))..((((((..-------------------.........).)))))..))).... ( -23.80)
>consensus
GAUCGAAUUAUUCGCAAAUUAAGCAG_____________AAACAGCAGGCGCUCGCCACGCCCCCAAGCCCCCA________AAACAAAGGGGCGGUGCUGCUAUGCUCGA
..((((.......((.......))..................((((.(((....))).((((((.........................))))))..))))......)))) (-17.90 = -18.79 +   0.89)

alignment

secondary structure

dotplot

Window 7

Location	25,337,788 – 25,337,879
Length	91
Sequences	6
Columns	111
Reading direction	reverse
Mean pairwise identity	71.53
Mean single sequence MFE	-36.17
Consensus MFE	-23.53
Energy contribution	-23.40
Covariance contribution	-0.13
Combinations/Pair	1.30
Mean z-score	-1.99
Structure conservation index	0.65
SVM decision value	2.02
SVM RNA-class probability	0.985696
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25337788 91 - 27905053
UCGACCAUAGCAGCACCGCCCCUUUGUUUU-------UGGCGACUUGGGGGCGUGGCAAGCGUCUGCUGUUU-------------CUGCUUAAUUUGCGAAUAAUUCGAUC
((((....(((((((.(((((((..(((..-------....)))..))))))).(((....)))))))))).-------------.(((.......)))......)))).. ( -30.00)
>DroSec_CAF1 22781 90 - 1
UCGACCAUAGCAGCACCGCCCCCUUGCCU--------UGGGGGCUGGGGGGCGUGGCGAGCGCCUGCUGUUU-------------CUGCUUAAUUUGCGAAUAAUUCGAUC
((((....(((((((.((((((((.(((.--------....))).)))))))).(((....)))))))))).-------------.(((.......)))......)))).. ( -40.40)
>DroSim_CAF1 23171 89 - 1
UCGACCAUAGCAGCAC-GCCCCCUUGCGU--------UGGGGGCUGGGGGGCGUGGCGAGCGCCUGCUGUUU-------------CUGCUUAAUUUGCGAAUAAUUCGAUC
((((..((((((((((-(((((((.((..--------.....)).))))))))))((....)))))))))((-------------(.((.......)))))....)))).. ( -38.20)
>DroEre_CAF1 22961 102 - 1
UCGAGCAUGGCAGCUCCGCCCCUUUGUUUUGGCCUC---------UGGGGGCGUGGCGGCCGCCUGCUGUUUCCAGCCAAGUGUGCUGCCUAAUUUGCGAAUAAUUCGAUC
(((((..(.((((...(((((((..((....))...---------.))))))).(((((((((..((((....))))...))).))))))....)))).)....))))).. ( -38.30)
>DroYak_CAF1 24548 111 - 1
UCGAGCAUGGCAGCCACGCCUCUUUGUUUUCGGCUUUUGGGGGGUUGGGGGCGUGGCGAGCGCCUGCUGUUUUCAGCCAAGUGUUCUGCUUAAUUUGCGAAUAAUUCGAUC
(((((((.(((((((((((((((...((..((.....))..))...)))))))))))((((((..((((....))))...)))))))))).....))).......)))).. ( -44.01)
>DroAna_CAF1 28728 92 - 1
UCAAGCAUAACCCCUCUGCCUCAUU-------------------UUGGGGGCGUGGCAAGUGCCUGCUGUUUUCAGCUAACUGCUUCGCUUAAUUGGCGAAUGAUUCAAUA
(((.(((..........(((((...-------------------...)))))..(((....))).((((....))))....)))((((((.....)))))))))....... ( -26.10)
>consensus
UCGACCAUAGCAGCACCGCCCCUUUGUUU________UGGGGGCUUGGGGGCGUGGCGAGCGCCUGCUGUUU_____________CUGCUUAAUUUGCGAAUAAUUCGAUC
((((....((((((..(((((((.......................))))))).(((....))).))))))...............(((.......)))......)))).. (-23.53 = -23.40 +  -0.13)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:37:43 2006