Locus 1363

Sequence ID	2R_DroMel_CAF1
Location	5,255,658 – 5,255,749
Length	91
Max. P	0.825798

overview

Window 1

Location	5,255,658 – 5,255,749
Length	91
Sequences	6
Columns	101
Reading direction	forward
Mean pairwise identity	74.95
Mean single sequence MFE	-20.05
Consensus MFE	-10.28
Energy contribution	-10.20
Covariance contribution	-0.08
Combinations/Pair	1.20
Mean z-score	-1.64
Structure conservation index	0.51
SVM decision value	0.01
SVM RNA-class probability	0.538320
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5255658 91 + 20766785
CUCG----------UGUCGCUCCGGAUUCUUUUCAUUUUUGGAAUCGCCCGACGCUCGGCAUUUUUCAUGCAACGAGGAUUUUUCCCAUCUCAAUCCCCCA
((((----------(((((.....((((((..........))))))...))))))...((((.....))))...)))........................ ( -18.30)
>DroSec_CAF1 123669 89 + 1
UUCG----------UGUCGCUCCGGAUUCUUUUCAUUUUUGGAAUCGCCCGACGCUCGGCAUUUUUCAUGCAACGAGGA-UUUUCCCAUCUCAAUCCC-CA
...(----------(((((.....((((((..........))))))...))))))(((((((.....))))..)))(((-((..........))))).-.. ( -18.10)
>DroSim_CAF1 111059 90 + 1
UUCG----------UGUCGCUCCGGAUUCUUUUCAUUUUUGGAAUCGCCCGACACUCGGCAUUUUUCAUGCAACGAGGACUUUUCCCAUCUCAAUCCC-CA
...(----------(((((.....((((((..........))))))...))))))(((((((.....))))..)))(((....)))............-.. ( -17.50)
>DroEre_CAF1 124316 76 + 1
CUGA----------UGUCGCACCGGGUUCUUUUCAUUUUUGAAAUCGCCCGACGCUCGGCAUUUUUCAUGCUACGAGGAUUUUUCC---------------
..((----------.(((....(((((...(((((....)))))..)))))...((((((((.....))))..)))))))...)).--------------- ( -19.80)
>DroYak_CAF1 125554 76 + 1
CUCG----------UGUCGCACCGGGUUCUUUUCAUUUUUGGAAUCGCCCGACGCUCGGCAUUUUUCAUGCUACGACGAUUUUCCC---------------
....----------((((((..(((((...(((((....)))))..)))))..))..(((((.....)))))..))))........--------------- ( -21.20)
>DroAna_CAF1 139753 97 + 1
UGCGAAAGUCUGUCUUCCGCUUCGGGCGCCUUUCAUUUUUGGAAUCGCCCGACACUCAACAUUUUUCAUGUUAUAUGCAUUUGGCCAAACGCCUUG----G
.(((.(((.....))).))).(((((((..(((((....))))).))))))).....(((((.....))))).....((...(((.....))).))----. ( -25.40)
>consensus
CUCG__________UGUCGCUCCGGAUUCUUUUCAUUUUUGGAAUCGCCCGACGCUCGGCAUUUUUCAUGCAACGAGGAUUUUUCCCAUCUCAAUC____A
..............(((((....((.....(((((....)))))...)))))))((((((((.....))))..))))........................ (-10.28 = -10.20 +  -0.08)

alignment

secondary structure

dotplot

Window 2

Location	5,255,658 – 5,255,749
Length	91
Sequences	6
Columns	101
Reading direction	reverse
Mean pairwise identity	74.95
Mean single sequence MFE	-23.17
Consensus MFE	-12.48
Energy contribution	-11.35
Covariance contribution	-1.13
Combinations/Pair	1.35
Mean z-score	-1.82
Structure conservation index	0.54
SVM decision value	0.70
SVM RNA-class probability	0.825798
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5255658 91 - 20766785
UGGGGGAUUGAGAUGGGAAAAAUCCUCGUUGCAUGAAAAAUGCCGAGCGUCGGGCGAUUCCAAAAAUGAAAAGAAUCCGGAGCGACA----------CGAG
..(((((((...........)))))))(((((.........(((........)))(((((............)))))....))))).----------.... ( -22.00)
>DroSec_CAF1 123669 89 - 1
UG-GGGAUUGAGAUGGGAAAA-UCCUCGUUGCAUGAAAAAUGCCGAGCGUCGGGCGAUUCCAAAAAUGAAAAGAAUCCGGAGCGACA----------CGAA
.(-((((((..........))-)))))(((((.........(((........)))(((((............)))))....))))).----------.... ( -22.10)
>DroSim_CAF1 111059 90 - 1
UG-GGGAUUGAGAUGGGAAAAGUCCUCGUUGCAUGAAAAAUGCCGAGUGUCGGGCGAUUCCAAAAAUGAAAAGAAUCCGGAGCGACA----------CGAA
.(-((((((...........)))))))...((((.....))))...((((((..((((((............)))))..)..)))))----------)... ( -22.70)
>DroEre_CAF1 124316 76 - 1
---------------GGAAAAAUCCUCGUAGCAUGAAAAAUGCCGAGCGUCGGGCGAUUUCAAAAAUGAAAAGAACCCGGUGCGACA----------UCAG
---------------(((....)))(((..((((.....)))))))((..((((...(((((....)))))....))))..))....----------.... ( -20.70)
>DroYak_CAF1 125554 76 - 1
---------------GGGAAAAUCGUCGUAGCAUGAAAAAUGCCGAGCGUCGGGCGAUUCCAAAAAUGAAAAGAACCCGGUGCGACA----------CGAG
---------------.......((((.((.((((.....))))...((..(((((..(((.......)))..)..))))..)).)))----------))). ( -18.60)
>DroAna_CAF1 139753 97 - 1
C----CAAGGCGUUUGGCCAAAUGCAUAUAACAUGAAAAAUGUUGAGUGUCGGGCGAUUCCAAAAAUGAAAGGCGCCCGAAGCGGAAGACAGACUUUCGCA
.----...(((.....))).....(((.((((((.....)))))).)))(((((((.(((.......)))...))))))).(((((((.....))))))). ( -32.90)
>consensus
U____GAUUGAGAUGGGAAAAAUCCUCGUAGCAUGAAAAAUGCCGAGCGUCGGGCGAUUCCAAAAAUGAAAAGAACCCGGAGCGACA__________CGAA
.........................(((..((((.....)))))))((..(((((..(((.......)))..)..))))..)).................. (-12.48 = -11.35 +  -1.13)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:03:08 2006