Locus 1345

Sequence ID	X_DroMel_CAF1
Location	4,030,776 – 4,030,888
Length	112
Max. P	0.525376

overview

Window 6

Location	4,030,776 – 4,030,888
Length	112
Sequences	3
Columns	112
Reading direction	forward
Mean pairwise identity	95.21
Mean single sequence MFE	-43.47
Consensus MFE	-36.94
Energy contribution	-39.00
Covariance contribution	2.06
Combinations/Pair	1.05
Mean z-score	-1.95
Structure conservation index	0.85
SVM decision value	-0.02
SVM RNA-class probability	0.524666
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4030776 112 + 22224390
GUGUGUGGCACAUUUUUGCUGACACCGAGUUGCGUGACUUGACAGUGAGCAAUCGAUGUUGGAUGUUGCAGGUUGCCCAACAGUGAUGUUGUUCGCCGGCAGCGGCAGCAGU
(.((((((((......)))).)))))..(((((.....(..(((.(((....))).)))..).((((((.(((.(..(((((....)))))..)))).)))))))))))... ( -39.50)
>DroSec_CAF1 44531 109 + 1
GUGUGUGGCAU-UUUUUGCUGACACCGAGUUGCGUGACUCGACAGUGAGCAAUCGAUGUUGGAUGUUGCAGGUUGC-CAGCAGUGAUGUUGCUCGCCGGCAGCGGCAGCAG-
..((.((((((-(..(((((.((..((((((....))))))...)).)))))..))))))).))(((((..(((((-(.(((((......))).)).)))))).)))))..- ( -44.60)
>DroSim_CAF1 40768 110 + 1
GUGUGUGGCAU-UUUUUGCUGACACCGAGUUGCGUGACUCGACAGUGAGCAAUCGAUGUUGGAUGUUGCAGGUUGC-CAGCAGCGAUGUUGCUCGCCGGCAGCGGCAGCAGU
..((.((((((-(..(((((.((..((((((....))))))...)).)))))..))))))).))(((((..(((((-(.((((((....)))).)).)))))).)))))... ( -46.30)
>consensus
GUGUGUGGCAU_UUUUUGCUGACACCGAGUUGCGUGACUCGACAGUGAGCAAUCGAUGUUGGAUGUUGCAGGUUGC_CAGCAGUGAUGUUGCUCGCCGGCAGCGGCAGCAGU
(.((((((((......)))).)))))..(((((.....((((((.(((....))).)))))).((((((.(((....(((((....)))))...))).)))))))))))... (-36.94 = -39.00 +   2.06)

alignment

secondary structure

dotplot

Window 7

Location	4,030,776 – 4,030,888
Length	112
Sequences	3
Columns	112
Reading direction	reverse
Mean pairwise identity	95.21
Mean single sequence MFE	-32.13
Consensus MFE	-27.32
Energy contribution	-27.43
Covariance contribution	0.11
Combinations/Pair	1.03
Mean z-score	-1.95
Structure conservation index	0.85
SVM decision value	-0.02
SVM RNA-class probability	0.525376
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4030776 112 - 22224390
ACUGCUGCCGCUGCCGGCGAACAACAUCACUGUUGGGCAACCUGCAACAUCCAACAUCGAUUGCUCACUGUCAAGUCACGCAACUCGGUGUCAGCAAAAAUGUGCCACACAC
..(((((..(.(((.((.(..(((((....)))))..)..)).))).).....(((((((((((..(((....)))...)))).))))))))))))....((((...)))). ( -30.60)
>DroSec_CAF1 44531 109 - 1
-CUGCUGCCGCUGCCGGCGAGCAACAUCACUGCUG-GCAACCUGCAACAUCCAACAUCGAUUGCUCACUGUCGAGUCACGCAACUCGGUGUCAGCAAAAA-AUGCCACACAC
-.(((((..(((((((((.((........))))))-)))....))........(((((((((((..(((....)))...)))).))))))))))))....-........... ( -30.90)
>DroSim_CAF1 40768 110 - 1
ACUGCUGCCGCUGCCGGCGAGCAACAUCGCUGCUG-GCAACCUGCAACAUCCAACAUCGAUUGCUCACUGUCGAGUCACGCAACUCGGUGUCAGCAAAAA-AUGCCACACAC
..(((((..(((((((((.(((......)))))))-)))....))........(((((((((((..(((....)))...)))).))))))))))))....-........... ( -34.90)
>consensus
ACUGCUGCCGCUGCCGGCGAGCAACAUCACUGCUG_GCAACCUGCAACAUCCAACAUCGAUUGCUCACUGUCGAGUCACGCAACUCGGUGUCAGCAAAAA_AUGCCACACAC
..((((((((....)))).)))).......(((((.((.....))........(((((((((((..(((....)))...)))).))))))))))))................ (-27.32 = -27.43 +   0.11)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:07:04 2006