Locus 4494

Sequence ID	X_DroMel_CAF1
Location	11,882,151 – 11,882,310
Length	159
Max. P	0.896281

overview

Window 1

Location	11,882,151 – 11,882,270
Length	119
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	96.49
Mean single sequence MFE	-31.12
Consensus MFE	-26.74
Energy contribution	-26.90
Covariance contribution	0.16
Combinations/Pair	1.04
Mean z-score	-1.40
Structure conservation index	0.86
SVM decision value	0.23
SVM RNA-class probability	0.642670
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11882151 119 - 22224390
AUUUCCGCCAUGCAAAAUCAACAGCAGCC-GACAACAAAUCCAGCCAACUGACCGGCUGUCAGGCAGCCAACCCACCUGGCCAUGUGCAAAUGCGUUUCACUGAAUCAUGUAUGGGUGCA
.......................(((.((-((((.......(((((........)))))(((((((((((.......))))..)))((....))......))))....))).))).))). ( -29.50)
>DroSec_CAF1 14032 120 - 1
AUUUCCGCCAUGCAAAAUCAACAGCAGCCGGACAACAAAUCCAGCCAACUGACCGGCUGUCAGGCAGCCAACCCACCUGGCCAUGUGCAAAUGCGUUUCACUGAAUCAUGCAUGGGUGCA
.......(((((((..........(((((((.((...............)).)))))))(((((((((((.......))))..)))((....))......))))....)))))))..... ( -34.76)
>DroSim_CAF1 16472 119 - 1
AUUUCCGCCAUGCAAAAUCAACAGCAGCCGGACAACAAAUCCAGCCAACUGACCGGCUGUCA-GCAGCCAACCCACCUGGCCAUGUGCAAAUGCGUUUCACUGAAUCAUGCAUGGGUGCA
.......(((((((...((((((...(((((..........(((....)))...(((((...-.))))).......)))))..)))((....)).......)))....)))))))..... ( -33.60)
>DroEre_CAF1 15396 119 - 1
AUUUCCGCCAUGCAAAAUCAACAGCAGCC-GACAACAAAUCCAACCAACUGACCGGCUGUCAGGCAGCCAACCCACCUGGCCAUGUGCAAAUGCGUUUCACUGAAUCAUGUAUGGGCACA
......((((((((..........(((((-(......................))))))(((((((((((.......))))..)))((....))......))))....))))).)))... ( -28.85)
>DroYak_CAF1 18551 119 - 1
AUUUCCGCCAUGCAAAAUCAACAGCAGCC-GACAACAAAUCCAACCAGCUGACCGGCUGUCAGGCAGCCAACCCACCUGGCCAUGUGCAAAUGCGUUUUACUGAAUCAUGUAUGGGCACA
......((((...........((((....-.................))))...(((((.....)))))........))))..(((((..((((((...........))))))..))))) ( -28.90)
>consensus
AUUUCCGCCAUGCAAAAUCAACAGCAGCC_GACAACAAAUCCAGCCAACUGACCGGCUGUCAGGCAGCCAACCCACCUGGCCAUGUGCAAAUGCGUUUCACUGAAUCAUGUAUGGGUGCA
.......(((((((...((((((...(((............(((....)))...(((((.....))))).........)))..)))((....)).......)))....)))))))..... (-26.74 = -26.90 +   0.16)

alignment

secondary structure

dotplot

Window 2

Location	11,882,191 – 11,882,310
Length	119
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	98.33
Mean single sequence MFE	-35.92
Consensus MFE	-33.02
Energy contribution	-32.98
Covariance contribution	-0.04
Combinations/Pair	1.03
Mean z-score	-1.56
Structure conservation index	0.92
SVM decision value	0.99
SVM RNA-class probability	0.896281
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11882191 119 + 22224390
CCAGGUGGGUUGGCUGCCUGACAGCCGGUCAGUUGGCUGGAUUUGUUGUC-GGCUGCUGUUGAUUUUGCAUGGCGGAAAUAUCAGCGACAAAGUUACCAAAAUAUUGAAAACAAAUAAAA
...(((((.(((((.(((.((((((..(((((....)).)))..))))))-))).)))(((((((((((...)))))...))))))....)).)))))...................... ( -34.30)
>DroSec_CAF1 14072 120 + 1
CCAGGUGGGUUGGCUGCCUGACAGCCGGUCAGUUGGCUGGAUUUGUUGUCCGGCUGCUGUUGAUUUUGCAUGGCGGAAAUAUCAGCGACAAAGUUACCAAAAUAUUGAAAACAAAUAAAA
...(((((.(((((((.....))))).(((....((((((((.....))))))))((((.((.((((((...)))))).)).))))))).)).)))))...................... ( -39.00)
>DroSim_CAF1 16512 119 + 1
CCAGGUGGGUUGGCUGC-UGACAGCCGGUCAGUUGGCUGGAUUUGUUGUCCGGCUGCUGUUGAUUUUGCAUGGCGGAAAUAUCAGCGACAAAGUUACCAAAAUAUUGAAAACAAAUAAAA
...(((((.(((((((.-...))))).(((....((((((((.....))))))))((((.((.((((((...)))))).)).))))))).)).)))))...................... ( -39.00)
>DroEre_CAF1 15436 119 + 1
CCAGGUGGGUUGGCUGCCUGACAGCCGGUCAGUUGGUUGGAUUUGUUGUC-GGCUGCUGUUGAUUUUGCAUGGCGGAAAUAUCAGCGACAAAGUUACCAAAAUAUUGAAAACAAAUAAAA
((((.(.(..((((((.....))))))..)).))))((((.....(((((-(.(((.((((...(((((...))))))))).))))))))).....)))).................... ( -32.60)
>DroYak_CAF1 18591 119 + 1
CCAGGUGGGUUGGCUGCCUGACAGCCGGUCAGCUGGUUGGAUUUGUUGUC-GGCUGCUGUUGAUUUUGCAUGGCGGAAAUAUCAGCGACAAAGUUACCAAAAUAUUGAAAACAAAUAAAA
((((.(.(..((((((.....))))))..)).))))((((.....(((((-(.(((.((((...(((((...))))))))).))))))))).....)))).................... ( -34.70)
>consensus
CCAGGUGGGUUGGCUGCCUGACAGCCGGUCAGUUGGCUGGAUUUGUUGUC_GGCUGCUGUUGAUUUUGCAUGGCGGAAAUAUCAGCGACAAAGUUACCAAAAUAUUGAAAACAAAUAAAA
...(((((.(((((.(((.((((((..(((((....)).)))..)))))).))).)))(((((((((((...)))))...))))))....)).)))))...................... (-33.02 = -32.98 +  -0.04)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:26:32 2006