Locus 3670

Sequence ID	2R_DroMel_CAF1
Location	12,213,395 – 12,213,497
Length	102
Max. P	0.937133

overview

Window 9

Location	12,213,395 – 12,213,497
Length	102
Sequences	6
Columns	105
Reading direction	forward
Mean pairwise identity	81.65
Mean single sequence MFE	-30.83
Consensus MFE	-23.29
Energy contribution	-24.07
Covariance contribution	0.78
Combinations/Pair	1.13
Mean z-score	-2.92
Structure conservation index	0.76
SVM decision value	1.26
SVM RNA-class probability	0.937133
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 12213395 102 + 20766785
UCCCAACGGAUUUCCUUUGAUGGCCAUCAAAAUUGAGUA-UGGCAAAGAACAGUAUACUCGUCAUUAAACGAGAUACGACG--UGAAUCCGUUGGGAAAUGGACA
((((((((((((..(.......((((((........).)-))))........((((.(((((......)))))))))...)--..))))))))))))........ ( -37.50)
>DroSec_CAF1 74485 103 + 1
UCCCAACGGAUUUCCUUUGAUGGCCAUCAAAAUUGAGCAAAGGCAAAGAGCAGUAUACUCGACAUUAACCGAGAAACGACG--UGAAUCAGUUGGGAAAUGGACA
(((((((.((((..(.(((...(((.(((....))).....))).............((((........))))...))).)--..)))).)))))))........ ( -26.40)
>DroSim_CAF1 70864 103 + 1
UCCCAACGGAUUUCCUUUGAUGGCCAUCAAACUUGAGCAAAGGCAAAGAGCAGUAUACUCGACAUUAAACGAGAAACGACG--UGAAUCCGUUGGGAAAUGGACA
((((((((((((..(.(((...(((.(((....))).....))).............((((........))))...))).)--..))))))))))))........ ( -32.10)
>DroEre_CAF1 82397 102 + 1
UCCCAACGGAUUUCGUUUGAUGGCCAUCAAAAUUGAGUU-UGGCAAUGAAGAGAAUACUCGACAUUCAACGAGAAACGACG--UGAAUCUGCUGGGAAAUGGACG
(((((.((((((((((((..(((((((((....)))...-))))((((..(((....)))..))))...))..))))))..--..)))))).)))))........ ( -28.60)
>DroYak_CAF1 77476 103 + 1
UCCCAACGGAUUUCGUUUGAUGGCCAUCAAAAUUGAGUU-UGGCAAAGAAAAGAAUACUCGACAUUCAACGAGAUACGACA-ACGAAUCCGCUGGGAAAUGGACU
(((((.((((((.((((.(.(((((((((....)))...-)))).............((((........))))...)).))-))))))))).)))))........ ( -29.80)
>DroAna_CAF1 69511 104 + 1
ACCCAACGGAUUUCGUUUGAUGGCCAUCAAAAUUGAGUA-UCACAUACAACGUUAGACAUGGUCAUAAACGAGAUUCCAUCGGAGCGUCCAUUGGGGAAAAGCAA
.(((((.((((((((((((.(((((((((....)))(((-(...))))...........))))))))))))))))))....((.....)).)))))......... ( -30.60)
>consensus
UCCCAACGGAUUUCCUUUGAUGGCCAUCAAAAUUGAGUA_UGGCAAAGAACAGUAUACUCGACAUUAAACGAGAAACGACG__UGAAUCCGUUGGGAAAUGGACA
(((((((((((((..((((((....))))))..........................((((........))))...........)))))))))))))........ (-23.29 = -24.07 +   0.78)

alignment

secondary structure

dotplot

Window 0

Location	12,213,395 – 12,213,497
Length	102
Sequences	6
Columns	105
Reading direction	reverse
Mean pairwise identity	81.65
Mean single sequence MFE	-30.65
Consensus MFE	-21.23
Energy contribution	-22.03
Covariance contribution	0.81
Combinations/Pair	1.09
Mean z-score	-2.93
Structure conservation index	0.69
SVM decision value	1.14
SVM RNA-class probability	0.921911
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 12213395 102 - 20766785
UGUCCAUUUCCCAACGGAUUCA--CGUCGUAUCUCGUUUAAUGACGAGUAUACUGUUCUUUGCCA-UACUCAAUUUUGAUGGCCAUCAAAGGAAAUCCGUUGGGA
........((((((((((((..--(...((((((((((....)))))).))))........((((-(.(........)))))).......)..)))))))))))) ( -37.60)
>DroSec_CAF1 74485 103 - 1
UGUCCAUUUCCCAACUGAUUCA--CGUCGUUUCUCGGUUAAUGUCGAGUAUACUGCUCUUUGCCUUUGCUCAAUUUUGAUGGCCAUCAAAGGAAAUCCGUUGGGA
........(((((((.((((..--((.((((........)))).)(((((....((.....))...)))))...((((((....)))))))..)))).))))))) ( -27.30)
>DroSim_CAF1 70864 103 - 1
UGUCCAUUUCCCAACGGAUUCA--CGUCGUUUCUCGUUUAAUGUCGAGUAUACUGCUCUUUGCCUUUGCUCAAGUUUGAUGGCCAUCAAAGGAAAUCCGUUGGGA
........((((((((((((..--((.((((........)))).)(((((....((.....))...)))))...((((((....)))))))..)))))))))))) ( -33.40)
>DroEre_CAF1 82397 102 - 1
CGUCCAUUUCCCAGCAGAUUCA--CGUCGUUUCUCGUUGAAUGUCGAGUAUUCUCUUCAUUGCCA-AACUCAAUUUUGAUGGCCAUCAAACGAAAUCCGUUGGGA
........(((((((.((((..--..((((((.......((((..(((....)))..))))((((-...(((....)))))))....)))))))))).))))))) ( -26.70)
>DroYak_CAF1 77476 103 - 1
AGUCCAUUUCCCAGCGGAUUCGU-UGUCGUAUCUCGUUGAAUGUCGAGUAUUCUUUUCUUUGCCA-AACUCAAUUUUGAUGGCCAUCAAACGAAAUCCGUUGGGA
........(((((((((((((((-(...(((.((((........)))))))..........((((-...(((....))))))).....)))).)))))))))))) ( -32.40)
>DroAna_CAF1 69511 104 - 1
UUGCUUUUCCCCAAUGGACGCUCCGAUGGAAUCUCGUUUAUGACCAUGUCUAACGUUGUAUGUGA-UACUCAAUUUUGAUGGCCAUCAAACGAAAUCCGUUGGGU
.........(((((((((...(((...)))...(((((((((.((((...(((.((((...(...-..).)))).))))))).))).))))))..))))))))). ( -26.50)
>consensus
UGUCCAUUUCCCAACGGAUUCA__CGUCGUAUCUCGUUUAAUGUCGAGUAUACUGUUCUUUGCCA_UACUCAAUUUUGAUGGCCAUCAAACGAAAUCCGUUGGGA
........(((((((((((((...........((((........))))..........................((((((....)))))).).)))))))))))) (-21.23 = -22.03 +   0.81)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:01:25 2006