Locus 3926

Sequence ID	X_DroMel_CAF1
Location	10,483,259 – 10,483,372
Length	113
Max. P	0.523187

overview

Window 7

Location	10,483,259 – 10,483,372
Length	113
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	83.58
Mean single sequence MFE	-30.92
Consensus MFE	-20.62
Energy contribution	-23.73
Covariance contribution	3.11
Combinations/Pair	1.03
Mean z-score	-1.95
Structure conservation index	0.67
SVM decision value	-0.02
SVM RNA-class probability	0.523187
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10483259 113 + 22224390
UGCUCGGCAAGGUGGCCAUAAAAAGCGAAAAAGCGGCGUCAAAAACAAAAGGCAAAG-----UUGCCUCACAAGUCC--UUCGUCCUUUGCUGCUUUCCUCCGCCAAAGUGCUCGAAUUA
...((((((...((((.....((((((..((((.((((...........(((((...-----.))))).........--..))))))))..)))))).....))))...))).))).... ( -33.75)
>DroSec_CAF1 14026 113 + 1
UGCUCGGCAAGGUGGCCAUAAAAAGCGAAAAAGCGGCGUCAAAAACAGAAGGCAAAG-----UUGCCUCACAAGUCC--UUCGUCCUUUGCCGCUUUCCUCCGCCAAAGUGCUCGAAUUA
...((((((...((((.....((((((..((((.((((...........(((((...-----.))))).........--..))))))))..)))))).....))))...))).))).... ( -35.55)
>DroSim_CAF1 14215 112 + 1
UGCUCGGCAAGGUGGCCAUAAAAAGCGAAAAAGCGGCGUCAA-AACAAAAGGCAAAG-----UUGCCUCACAAGUCU--UUCGUCGUUUGCCGCUUUCCUCCGCCAAAGUGCUCGAAUUA
...((((((...((((.....((((((...((((((((....-......(((((...-----.))))).........--..))))))))..)))))).....))))...))).))).... ( -37.00)
>DroEre_CAF1 15456 113 + 1
UACUCGGCAAGGUGGCCAUAAAAUGCGAAAAAGCGGCGUCAAAAACAAAAGGCAAAG-----UUGCCUCACAAGUCC--UUCGUCCUUUGCCGCUUUUCUCCGCCAAAGUGCUCAAAUUA
.....((((...((((....(((.(((..((((.((((...........(((((...-----.))))).........--..))))))))..))).)))....))))...))))....... ( -29.85)
>DroYak_CAF1 16171 113 + 1
UGCUCGGCAAGGUGGCCAUAAAAAGCGAAAAAGCGGCGUCAAAAACAAAAGGCAAAG-----UUGCCUCACAAGUCC--UUCGUCCUUUGCCGCUUUUCUCCGCCAAAGUGCUCGAAUUA
...((((((...((((....(((((((..((((.((((...........(((((...-----.))))).........--..))))))))..)))))))....))))...))).))).... ( -36.65)
>DroAna_CAF1 14773 103 + 1
C----------CUGGCCAUAAAAACCGAAUUA-CGCCGACAAAAACAAAAGGCCAAAAACUUCUGCCUG-CCAGUCCUGUUCGUCCUUUUUUUUUUUUGUUUCC-----UUUUCAAAUUA
.----------..(((..(((........)))-.)))((((((((.((((((.(.((.....(((....-.))).....)).).))))))...))))))))...-----........... ( -12.70)
>consensus
UGCUCGGCAAGGUGGCCAUAAAAAGCGAAAAAGCGGCGUCAAAAACAAAAGGCAAAG_____UUGCCUCACAAGUCC__UUCGUCCUUUGCCGCUUUCCUCCGCCAAAGUGCUCGAAUUA
...((((((...((((.....((((((..((((.((((...........((((((.......)))))).............))))))))..)))))).....))))...))).))).... (-20.62 = -23.73 +   3.11)

alignment

secondary structure

dotplot

Window 8

Location	10,483,259 – 10,483,372
Length	113
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	83.58
Mean single sequence MFE	-35.47
Consensus MFE	-24.71
Energy contribution	-27.77
Covariance contribution	3.06
Combinations/Pair	1.13
Mean z-score	-1.68
Structure conservation index	0.70
SVM decision value	-0.07
SVM RNA-class probability	0.500000
Prediction	OTHER

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10483259 113 - 22224390
UAAUUCGAGCACUUUGGCGGAGGAAAGCAGCAAAGGACGAA--GGACUUGUGAGGCAA-----CUUUGCCUUUUGUUUUUGACGCCGCUUUUUCGCUUUUUAUGGCCACCUUGCCGAGCA
...((((.(((...((((.(..(((((((((...((.((((--((((....((((((.-----...))))))..))))))..))))))).....))))))..).))))...))))))).. ( -34.60)
>DroSec_CAF1 14026 113 - 1
UAAUUCGAGCACUUUGGCGGAGGAAAGCGGCAAAGGACGAA--GGACUUGUGAGGCAA-----CUUUGCCUUCUGUUUUUGACGCCGCUUUUUCGCUUUUUAUGGCCACCUUGCCGAGCA
........((...((((((.(((((((((((.(((((((((--((.(....(((....-----))).)))))).))))))...))))))))...(((......)))..))))))))))). ( -40.90)
>DroSim_CAF1 14215 112 - 1
UAAUUCGAGCACUUUGGCGGAGGAAAGCGGCAAACGACGAA--AGACUUGUGAGGCAA-----CUUUGCCUUUUGUU-UUGACGCCGCUUUUUCGCUUUUUAUGGCCACCUUGCCGAGCA
...((((.(((...((((.(..((((((((.(((((.((.(--((((....((((((.-----...))))))..)))-))..)).)).))).))))))))..).))))...))))))).. ( -39.30)
>DroEre_CAF1 15456 113 - 1
UAAUUUGAGCACUUUGGCGGAGAAAAGCGGCAAAGGACGAA--GGACUUGUGAGGCAA-----CUUUGCCUUUUGUUUUUGACGCCGCUUUUUCGCAUUUUAUGGCCACCUUGCCGAGUA
..(((((.(((...((((.((((((.(((((.(((((((((--((.(....(((....-----))).).)))))))))))...))))))))))).(((...)))))))...)))))))). ( -39.00)
>DroYak_CAF1 16171 113 - 1
UAAUUCGAGCACUUUGGCGGAGAAAAGCGGCAAAGGACGAA--GGACUUGUGAGGCAA-----CUUUGCCUUUUGUUUUUGACGCCGCUUUUUCGCUUUUUAUGGCCACCUUGCCGAGCA
...((((.(((...((((.(.(((((((((.(((((.((((--((((....((((((.-----...))))))..))))))..)).).)))).))))))))).).))))...))))))).. ( -39.30)
>DroAna_CAF1 14773 103 - 1
UAAUUUGAAAA-----GGAAACAAAAAAAAAAAAGGACGAACAGGACUGG-CAGGCAGAAGUUUUUGGCCUUUUGUUUUUGUCGGCG-UAAUUCGGUUUUUAUGGCCAG----------G
......((...-----((((((((((.......((..(.....)..))((-(.(((....)))....))))))))))))).))((((-(((........)))).)))..----------. ( -19.70)
>consensus
UAAUUCGAGCACUUUGGCGGAGAAAAGCGGCAAAGGACGAA__GGACUUGUGAGGCAA_____CUUUGCCUUUUGUUUUUGACGCCGCUUUUUCGCUUUUUAUGGCCACCUUGCCGAGCA
...((((.(((...((((.(.(((((((((.(((((.((....((((....(((((((.......)))))))..))))....)).).)))).))))))))).).))))...))))))).. (-24.71 = -27.77 +   3.06)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:11:58 2006