Locus 4432

Sequence ID	3L_DroMel_CAF1
Location	12,938,444 – 12,938,615
Length	171
Max. P	0.988009

overview

Window 2

Location	12,938,444 – 12,938,564
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	95.00
Mean single sequence MFE	-37.02
Consensus MFE	-32.98
Energy contribution	-33.06
Covariance contribution	0.08
Combinations/Pair	1.11
Mean z-score	-1.84
Structure conservation index	0.89
SVM decision value	2.10
SVM RNA-class probability	0.988009
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12938444 120 - 23771897
UUGCCAGCGGCCUUUUAUAACAAUUGGUAUGAAGGCGAUCUUGUUUAUCGAAGGAUGCUCCUCAUCCUGAUGAUGCGUGCUACGAAACCUUAUAUGUGGAAAACCUACAAGCUGGCACCU
.(((((((.((((((.(((.(....).)))))))))...........(((.((.((((...((((....)))).)))).)).))).........(((((.....))))).)))))))... ( -36.90)
>DroSec_CAF1 54986 120 - 1
UUGCCAGCGGCCUUUUAUAACAAUUGGUAUGAGGGCGAUCUUGCUUAUCGAAGGAUGCUCCUCAUCCUGAUGAUGCGGGCUACGAAACCUUAUAUGUGGAGAACUUACAAGCUGGCGCCU
..((((((..................((((((((.((..((((((((((..((((((.....))))))))))).)))))...))...))))))))((((.....))))..)))))).... ( -39.40)
>DroSim_CAF1 59189 120 - 1
UUGCCAGCGGCCUUUUAUAACAAUUGGUAUGAGGGCGAUCUUGCUUAUCGAAGGAUGCUCCUCAUCCUGAUGAUGCGGGCUACGAAACCUUAUAUGUGGAGAACAUACAAGCUGGCGCCU
..(((((((((((..(((....((..(.((((((((.(((((.........))))))).)))))).)..)).))).)))))...........(((((.....)))))...)))))).... ( -40.30)
>DroEre_CAF1 60855 120 - 1
UUGCCAGCAGCCUUUUAUAACAAUUGGUAUGAGGGCGAUCUUGCUUAUCGAAGGAUGCUUCUCAUCCUGAUGAUGCGUGCUACGAAACCUUAUAUGUGGAGAACCUACAAGCUGGCACCU
.(((((((..................((((((((.((....((((((((..((((((.....))))))))))).))).....))...))))))))((((.....))))..)))))))... ( -39.40)
>DroYak_CAF1 58353 120 - 1
UUACCAGCAGCCUUUUAUAACAAUUGGUAUGAGGGCGAUCUUGCUUAUCGAAGGAUGCUUCUCAUCCUGAUGAUGCGUGCUACAAAACCUUAUAUGUGGAGAACUUACAAGUUGGCACCA
...(((((.((((((.(((.(....).)))))))))......(((((((..((((((.....))))))))))).))((.(((((..........)))))...))......)))))..... ( -29.10)
>consensus
UUGCCAGCGGCCUUUUAUAACAAUUGGUAUGAGGGCGAUCUUGCUUAUCGAAGGAUGCUCCUCAUCCUGAUGAUGCGUGCUACGAAACCUUAUAUGUGGAGAACCUACAAGCUGGCACCU
.(((((((..................((((((((.((....((((((((..((((((.....))))))))))).))).....))...))))))))((((.....))))..)))))))... (-32.98 = -33.06 +   0.08)

alignment

secondary structure

dotplot

Window 3

Location	12,938,524 – 12,938,615
Length	91
Sequences	3
Columns	103
Reading direction	forward
Mean pairwise identity	86.41
Mean single sequence MFE	-22.18
Consensus MFE	-14.49
Energy contribution	-16.10
Covariance contribution	1.61
Combinations/Pair	1.05
Mean z-score	-2.24
Structure conservation index	0.65
SVM decision value	-0.03
SVM RNA-class probability	0.517129
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12938524 91 + 23771897
GAUCGCCUUCAUACCAAUUGUUAUAAAAGGCCGCUGGCAAUACUUUGCCACUCUGAAAAGAAAAGCUUUA------------UAUGAUAAAAAGACUACUCUU
.................((((((((.(((((...((((((....)))))).(((....)))...))))).------------))))))))............. ( -19.90)
>DroSec_CAF1 55066 103 + 1
GAUCGCCCUCAUACCAAUUGUUAUAAAAGGCCGCUGGCAAUACUUUGUCACUCUGAAAAGAGAAGCUUUAUCAGGGCACCAAUAUGAUAAAAAGACUACUCAU
....(((((.(((((.............))..((((((((....))))).((((....)))).)))..))).))))).......................... ( -21.92)
>DroSim_CAF1 59269 100 + 1
GAUCGCCCUCAUACCAAUUGUUAUAAAAGGCCGCUGGCAAUACUUUGCCACUCUGAAAAGAGAAGCUAUAUCAGGGCACCAAUAUGAUAAAAA---UACGCAU
....(((((.(((((.............))..((((((((....))))).((((....)))).)))..))).)))))................---....... ( -24.72)
>consensus
GAUCGCCCUCAUACCAAUUGUUAUAAAAGGCCGCUGGCAAUACUUUGCCACUCUGAAAAGAGAAGCUUUAUCAGGGCACCAAUAUGAUAAAAAGACUACUCAU
.((((((...(((.(....).)))....))).((((((((....))))).((((....)))).)))...................)))............... (-14.49 = -16.10 +   1.61)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:22:30 2006