Locus 747

Sequence ID	3R_DroMel_CAF1
Location	2,636,925 – 2,637,042
Length	117
Max. P	0.999293

overview

Window 7

Location	2,636,925 – 2,637,042
Length	117
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	91.25
Mean single sequence MFE	-32.58
Consensus MFE	-22.44
Energy contribution	-26.66
Covariance contribution	4.22
Combinations/Pair	1.05
Mean z-score	-2.78
Structure conservation index	0.69
SVM decision value	0.32
SVM RNA-class probability	0.688371
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2636925 117 + 27905053
CGGCCUCCCAAAACUCGCUAAUGCAGUGCAAAUAUC---GAACAUUAAAUAUAUUAUGGAAAUAAUAUAUCUGUCGUUAAUUUUUUGCACCCAAGCGAGCGAAGGAUUUUUCAGUUGGAG
....((((.....((((((..((..(((((((....---.(((..((.(((((((((....))))))))).))..))).....))))))).)))))))).((((....))))....)))) ( -31.10)
>DroSec_CAF1 37241 120 + 1
CGACCUCCCAAAACUCGCUAAUGCAGCGCAAAUAUUUGGCAACAUUAAAUAUAUUAUGGAAAUAAUAGAUCUGUCGUUAAUUUUUUGCACUCAAGCGAGCGAAGGAUUUUUCGGUUGGGA
.....((((((..((((((..((.((.(((((...(((((.(((.......((((((....))))))....))).)))))...))))).))))))))))(((((....))))).)))))) ( -34.40)
>DroSim_CAF1 25452 120 + 1
CGGCCUCCCAAAACUCGCUAAUGCAGUGCAAAUAUUUGGCAACAUUAAAUAUAUUAUGGAAAUAAUAGAUCUGUCGUUAAUUUUUUGCACUCAAGCGAGCGAAGGAUUUUUCGGUUGGGA
.....((((((..((((((..((.((((((((...(((((.(((.......((((((....))))))....))).)))))...))))))))))))))))(((((....))))).)))))) ( -38.30)
>DroEre_CAF1 27959 120 + 1
CGGCCUCCCAAAACUCGCUAAUGCAGUGCAAAUAUUUGGCAACAUUAAAUAUAUUAUGGAAAUAAUAGAUCUGUCGUUAAUUUCUUGCAGCCAAGCGAGCGAAGGAUUUUUCGGUUGGGA
.....((((((..((((((...((..(((((..(.(((((.(((.......((((((....))))))....))).))))).)..)))))))..))))))(((((....))))).)))))) ( -32.30)
>DroYak_CAF1 18892 111 + 1
---------AAAACUUGCUAAUGCAGUGCAAAUAUUUGGCAACAUUAAAUAAAUUAUGAAAAUAAUAGAUCUGUCGUUAAUUUUUUGCACCCAAGCGAGCGAAGGAUUUUUCGGUUGGGA
---------.....((((....))))((((((...(((((.(((....((..(((((....)))))..)).))).)))))...))))))(((((.(((((....)....)))).))))). ( -26.80)
>consensus
CGGCCUCCCAAAACUCGCUAAUGCAGUGCAAAUAUUUGGCAACAUUAAAUAUAUUAUGGAAAUAAUAGAUCUGUCGUUAAUUUUUUGCACCCAAGCGAGCGAAGGAUUUUUCGGUUGGGA
.....((((((..((((((......(((((((...(((((.(((.......((((((....))))))....))).)))))...)))))))...))))))(((((....))))).)))))) (-22.44 = -26.66 +   4.22)

alignment

secondary structure

dotplot

Window 8

Location	2,636,925 – 2,637,042
Length	117
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	91.25
Mean single sequence MFE	-30.33
Consensus MFE	-26.06
Energy contribution	-27.18
Covariance contribution	1.12
Combinations/Pair	1.10
Mean z-score	-2.74
Structure conservation index	0.86
SVM decision value	3.49
SVM RNA-class probability	0.999293
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2636925 117 - 27905053
CUCCAACUGAAAAAUCCUUCGCUCGCUUGGGUGCAAAAAAUUAACGACAGAUAUAUUAUUUCCAUAAUAUAUUUAAUGUUC---GAUAUUUGCACUGCAUUAGCGAGUUUUGGGAGGCCG
((((....(((......)))(((((((((((((((((.....((((..(((((((((((....)))))))))))..)))).---....)))))))).))..)))))))....)))).... ( -34.20)
>DroSec_CAF1 37241 120 - 1
UCCCAACCGAAAAAUCCUUCGCUCGCUUGAGUGCAAAAAAUUAACGACAGAUCUAUUAUUUCCAUAAUAUAUUUAAUGUUGCCAAAUAUUUGCGCUGCAUUAGCGAGUUUUGGGAGGUCG
((((((..(((......)))(((((((((((((((((.......((((((((.((((((....)))))).)))...))))).......)))))))).))..))))))).))))))..... ( -33.44)
>DroSim_CAF1 25452 120 - 1
UCCCAACCGAAAAAUCCUUCGCUCGCUUGAGUGCAAAAAAUUAACGACAGAUCUAUUAUUUCCAUAAUAUAUUUAAUGUUGCCAAAUAUUUGCACUGCAUUAGCGAGUUUUGGGAGGCCG
((((((..(((......)))(((((((((((((((((.......((((((((.((((((....)))))).)))...))))).......)))))))).))..))))))).))))))..... ( -33.84)
>DroEre_CAF1 27959 120 - 1
UCCCAACCGAAAAAUCCUUCGCUCGCUUGGCUGCAAGAAAUUAACGACAGAUCUAUUAUUUCCAUAAUAUAUUUAAUGUUGCCAAAUAUUUGCACUGCAUUAGCGAGUUUUGGGAGGCCG
((((((..(((......)))(((((((..((((((((.......((((((((.((((((....)))))).)))...))))).......))))))..))...))))))).))))))..... ( -31.24)
>DroYak_CAF1 18892 111 - 1
UCCCAACCGAAAAAUCCUUCGCUCGCUUGGGUGCAAAAAAUUAACGACAGAUCUAUUAUUUUCAUAAUUUAUUUAAUGUUGCCAAAUAUUUGCACUGCAUUAGCAAGUUUU---------
..((((.(((............))).))))(((((((.......((((((((..(((((....)))))..)))...))))).......)))))))(((....)))......--------- ( -18.94)
>consensus
UCCCAACCGAAAAAUCCUUCGCUCGCUUGGGUGCAAAAAAUUAACGACAGAUCUAUUAUUUCCAUAAUAUAUUUAAUGUUGCCAAAUAUUUGCACUGCAUUAGCGAGUUUUGGGAGGCCG
((((((..(((......)))(((((((((((((((((.......((((((((.((((((....)))))).)))...))))).......)))))))).))..))))))).))))))..... (-26.06 = -27.18 +   1.12)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:51:02 2006