Locus 7171

Sequence ID	2L_DroMel_CAF1
Location	20,062,911 – 20,063,004
Length	93
Max. P	0.697339

overview

Window 9

Location	20,062,911 – 20,063,004
Length	93
Sequences	5
Columns	97
Reading direction	forward
Mean pairwise identity	83.16
Mean single sequence MFE	-27.72
Consensus MFE	-16.07
Energy contribution	-16.39
Covariance contribution	0.32
Combinations/Pair	1.25
Mean z-score	-2.12
Structure conservation index	0.58
SVM decision value	0.22
SVM RNA-class probability	0.640733
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20062911 93 + 22407834
GUAGUUGCUCUUCUCACCCCUU----CGCAGACAGCUGCUAGUUUUCCCUUUGAAUAGGCCUUGACCUUUUUAGAGCGAGACCGACUGGCAACGUAA
...((((((..((.........----.((((....))))..(.((((.(((((((.(((......))).))))))).)))).)))..)))))).... ( -25.90)
>DroSec_CAF1 5109 93 + 1
GCAGUUGCUCUUCUCACCCCUU----CGCAGACAGCUGCGAGUUUUCCCUUUGAAUAGGCCUUGACCUUUUCAGAGCGAGAGCGACUGGCAACCUAA
.((((((((((((((.....((----(((((....))))))).........((((.(((......))).))))))).)))))))))))......... ( -35.80)
>DroSim_CAF1 5075 93 + 1
GCAGUUGCUCUUCUCACCCCUU----CGCAGACAGCUGCGAGUUUUCCCUUUGAAUAGGCCUUGACCUUUUCAGAGCGAGAGCGACUGGCAACGUAA
...((((((..((........(----(((((....))))))((((((.(((((((.(((......))).))))))).))))))))..)))))).... ( -36.10)
>DroEre_CAF1 5427 80 + 1
GUAUUUGCUUU--UCACCCUUU----CACAGACAGCUGCGGGUUUUCCUUCUGAAUGGGCCUUGACCUUUUCAGAGCG-----------AAACGUAA
((.(((((...--..((((...----..(((....))).))))......((((((.(((......))).)))))))))-----------)))).... ( -19.20)
>DroYak_CAF1 5304 95 + 1
GAAAUUGCUUU--UUACCCGUUUCCCCACAGACAGCUGCGAGUUUUCCUUGUGAAUAGGCCUUGACCUUUUCAGAGCGAGACCAAGUGGAAACGUAA
...........--.....(((((((.(.(((....))).(.(((((.(((.((((.(((......))).))))))).))))))..).)))))))... ( -21.60)
>consensus
GCAGUUGCUCUUCUCACCCCUU____CGCAGACAGCUGCGAGUUUUCCCUUUGAAUAGGCCUUGACCUUUUCAGAGCGAGACCGACUGGCAACGUAA
(((((((.(((..................))))))))))....((((.(((((((.(((......))).))))))).))))................ (-16.07 = -16.39 +   0.32)

alignment

secondary structure

dotplot

Window 0

Location	20,062,911 – 20,063,004
Length	93
Sequences	5
Columns	97
Reading direction	reverse
Mean pairwise identity	83.16
Mean single sequence MFE	-29.30
Consensus MFE	-18.06
Energy contribution	-20.00
Covariance contribution	1.94
Combinations/Pair	1.08
Mean z-score	-2.06
Structure conservation index	0.62
SVM decision value	0.34
SVM RNA-class probability	0.697339
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20062911 93 - 22407834
UUACGUUGCCAGUCGGUCUCGCUCUAAAAAGGUCAAGGCCUAUUCAAAGGGAAAACUAGCAGCUGUCUGCG----AAGGGGUGAGAAGAGCAACUAC
....(((((...((..(((((((((....((((....)))).(((..((......)).((((....)))))----))))))))))).)))))))... ( -29.80)
>DroSec_CAF1 5109 93 - 1
UUAGGUUGCCAGUCGCUCUCGCUCUGAAAAGGUCAAGGCCUAUUCAAAGGGAAAACUCGCAGCUGUCUGCG----AAGGGGUGAGAAGAGCAACUGC
...((((((...((..((((((((((((.((((....)))).)))...........((((((....)))))----).))))))))).)))))))).. ( -35.90)
>DroSim_CAF1 5075 93 - 1
UUACGUUGCCAGUCGCUCUCGCUCUGAAAAGGUCAAGGCCUAUUCAAAGGGAAAACUCGCAGCUGUCUGCG----AAGGGGUGAGAAGAGCAACUGC
....(((((...((..((((((((((((.((((....)))).)))...........((((((....)))))----).))))))))).)))))))... ( -34.80)
>DroEre_CAF1 5427 80 - 1
UUACGUUU-----------CGCUCUGAAAAGGUCAAGGCCCAUUCAGAAGGAAAACCCGCAGCUGUCUGUG----AAAGGGUGA--AAAGCAAAUAC
.....(((-----------(((((((((..(((....)))..)))))).......(((((((....)))))----...))))))--))......... ( -20.40)
>DroYak_CAF1 5304 95 - 1
UUACGUUUCCACUUGGUCUCGCUCUGAAAAGGUCAAGGCCUAUUCACAAGGAAAACUCGCAGCUGUCUGUGGGGAAACGGGUAA--AAAGCAAUUUC
...(((((((.(((((.....)..((((.((((....)))).))))))))......((((((....))))))))))))).....--........... ( -25.60)
>consensus
UUACGUUGCCAGUCGCUCUCGCUCUGAAAAGGUCAAGGCCUAUUCAAAGGGAAAACUCGCAGCUGUCUGCG____AAGGGGUGAGAAGAGCAACUAC
....(((((.......((((((((((((.((((....)))).))))...........(((((....))))).......))))))))...)))))... (-18.06 = -20.00 +   1.94)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:29:12 2006