Locus 7730

Sequence ID	2L_DroMel_CAF1
Location	21,849,288 – 21,849,475
Length	187
Max. P	0.915422

overview

Window 8

Location	21,849,288 – 21,849,384
Length	96
Sequences	4
Columns	96
Reading direction	reverse
Mean pairwise identity	81.60
Mean single sequence MFE	-22.72
Consensus MFE	-16.20
Energy contribution	-17.82
Covariance contribution	1.62
Combinations/Pair	1.11
Mean z-score	-2.09
Structure conservation index	0.71
SVM decision value	1.10
SVM RNA-class probability	0.915422
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 21849288 96 - 22407834
CCCUUCCCCUUCGGCAAUCACGAUCACCUUUACGGCGAUGGCGAUAGUUCAUUUCUUAAUUGUUCUGCCGCCAACGCCGCCGCCACUGACAACAAU
............(((......((......)).(((((.(((((.(((..((.........))..))).))))).)))))..)))............ ( -25.40)
>DroSec_CAF1 137149 96 - 1
CCCUUCCCUGUCCGGAAUCACAAUCACCUUCACGGCGAUGGCGAUAGUUCAUUUCUUAAUUGUUCUGCCGCCAACGCCGCCGCCACUGACAACAAU
........((((.((((...........))).(((((.(((((.(((..((.........))..))).))))).)))))......).))))..... ( -24.40)
>DroSim_CAF1 83590 96 - 1
CCCUUCCCUGUCCGGAAUCACAAUCACCUUCACGGCGAUGGCGAUAGUUCAUUUCUUAAUUGUUCUGCCGCCAACGCCGCCGCCACUGACAACAAU
........((((.((((...........))).(((((.(((((.(((..((.........))..))).))))).)))))......).))))..... ( -24.40)
>DroYak_CAF1 88158 72 - 1
CCCAUCCCUUUCGGGAA------------UCACGGCGAUGGUGAUAGUUCAUUUCUUAAUUGUUUGGCCGCC------------ACGGACAACAAU
.((.((((....)))).------------....((((.....(((((((........)))))))....))))------------..))........ ( -16.70)
>consensus
CCCUUCCCUGUCCGGAAUCACAAUCACCUUCACGGCGAUGGCGAUAGUUCAUUUCUUAAUUGUUCUGCCGCCAACGCCGCCGCCACUGACAACAAU
....(((......)))................(((((.(((((.(((..((.........))..))).))))).)))))................. (-16.20 = -17.82 +   1.62)

alignment

secondary structure

dotplot

Window 9

Location	21,849,384 – 21,849,475
Length	91
Sequences	5
Columns	92
Reading direction	forward
Mean pairwise identity	90.62
Mean single sequence MFE	-32.18
Consensus MFE	-27.12
Energy contribution	-27.32
Covariance contribution	0.20
Combinations/Pair	1.08
Mean z-score	-1.34
Structure conservation index	0.84
SVM decision value	0.18
SVM RNA-class probability	0.621998
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 21849384 91 + 22407834
UGGCAGCGGAAUGUGGAUCUCUUGUGGGGGAGCCAAUUAGCCAGCCGCAGUGUUUGCCG-AUCAAAUCUGGGAGGGCCGAAGCCCGAAUGGA
.(((..((.....(((.(((((....))))).)))....(((..((.(((.(((((...-..))))))))))..)))))..)))........ ( -27.70)
>DroSec_CAF1 137245 92 + 1
UGGCAGCGCAAUGUGGAUCGCUAUUGGGGGAGCCAAUUAGCCAGCCGCAGUGUUUGCCAAAUCAAAUCUGGGAGGGCCGUUGCCCAAAUGGA
((((((.(((.(((((...((((...((....))...))))...))))).))))))))).......((((...((((....))))...)))) ( -33.90)
>DroSim_CAF1 83686 92 + 1
UGGCAGCGCAAUGUGGAUCGCUAUUGGGGGAGCCAAUUAGCCAGCCGCAGUGUUUGCCAAAUCAAAUCUGGGAGGGCCGUUGCCCGAAUGGA
((((((.(((.(((((...((((...((....))...))))...))))).))))))))).......((((...((((....))))...)))) ( -35.00)
>DroEre_CAF1 99065 91 + 1
UGGCGGCGGAAUGUGGAUCGCUUUUGGGGAAGCCAAUUAGCCAGCCGCAGUGUUUGCCG-AUCAAAUCUGGGAGGGCUGAAGCCCAAAUGGA
((((((((((.(((((...(((.((((.....))))..)))...)))))...)))))))-.)))..((((...((((....))))...)))) ( -34.80)
>DroYak_CAF1 88230 91 + 1
UUGCAGCGGAAUGUGGAUCGCUUUUGGGGAAACCAAUUAGCCGGCCGCAGUGUUUGCCG-AUCAAAUAUGGAAGGGCUGAAGCCCGAAUGGA
.....(((((.(((((...(((....((....))....)))...)))))...)))))..-.............((((....))))....... ( -29.50)
>consensus
UGGCAGCGGAAUGUGGAUCGCUUUUGGGGGAGCCAAUUAGCCAGCCGCAGUGUUUGCCG_AUCAAAUCUGGGAGGGCCGAAGCCCGAAUGGA
((((((((...(((((...(((....((....))....)))...))))).)).)))))).......((((...((((....))))...)))) (-27.12 = -27.32 +   0.20)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:43:42 2006