Locus 5792

Sequence ID	3R_DroMel_CAF1
Location	15,113,650 – 15,113,743
Length	93
Max. P	0.962644

overview

Window 1

Location	15,113,650 – 15,113,743
Length	93
Sequences	6
Columns	93
Reading direction	forward
Mean pairwise identity	81.24
Mean single sequence MFE	-31.75
Consensus MFE	-21.34
Energy contribution	-21.57
Covariance contribution	0.22
Combinations/Pair	1.10
Mean z-score	-2.61
Structure conservation index	0.67
SVM decision value	1.04
SVM RNA-class probability	0.905065
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15113650 93 + 27905053
UGGCGCUUACAAGAUGCCUAUUUUGGGAGUGGCGCCAUUUUAUGCGCACCACUUCCACUGGCGGCUCUCAUUUACGCCGCCCCAAAAUGUGGG
.((((((....)).)))).....(((((((((.(((((...))).)).)))))))))..((((((..........))))))(((.....))). ( -36.40)
>DroSim_CAF1 36548 93 + 1
UGGCGCUUACAAGAUGCCUAUUUUGGGAGUGGCGCCAUUUUAUGCGCACCACUUCCACUGGCGGCUCUCAUUUACGCCGCCCCAAAAUGUGGG
.((((((....)).)))).....(((((((((.(((((...))).)).)))))))))..((((((..........))))))(((.....))). ( -36.40)
>DroEre_CAF1 37232 93 + 1
UGGCGCUUACAAGAUGCCUAUUUUGGGAGUGGCGCCAUUUUAUGCGCACCACUUACACCGGCGGCUCUCAUUUGCGCCGCCCCAAAAUGUGGG
.((((((....)).))))((((((((((((((.(((((...))).)).)))))).....((((((.(......).)))))))))))))).... ( -37.60)
>DroWil_CAF1 28998 76 + 1
UGGCGCUUACAAGUUGCCUAUUUUGGGUGUGGCGCCUUUUGACUC----------------CAAACCUCAUUUACACCAC-CCAAAAUGUGCA
.((((((....)).))))(((((((((((((......((((....----------------)))).........)).)))-)))))))).... ( -19.06)
>DroYak_CAF1 31118 93 + 1
UGGCGCUUACAAGAUGCCUAUUUUGGGAGUGGCGCCAUUUUAUGCGCACCACUUCCACCGGCGGCUCUCAUUUACGCCGCCCCAAAAUGUGGA
.((((((....)).)))).....(((((((((.(((((...))).)).)))))))))..((((((..........))))))(((.....))). ( -36.50)
>DroAna_CAF1 36995 80 + 1
UGGCGCUUGCAGGCUACCUAUUUUGGGAGUGGCGCCUUUUU-------------CCCCAUGCACCUCUCAUUUACGCCGCCCCAAAAUGUGGC
((((........))))(((((((((((.((((((.......-------------....................))))))))))))))).)). ( -24.53)
>consensus
UGGCGCUUACAAGAUGCCUAUUUUGGGAGUGGCGCCAUUUUAUGCGCACCACUUCCACCGGCGGCUCUCAUUUACGCCGCCCCAAAAUGUGGG
.((((((....)).))))(((((((((.((((((........................................))))))))))))))).... (-21.34 = -21.57 +   0.22)

alignment

secondary structure

dotplot

Window 2

Location	15,113,650 – 15,113,743
Length	93
Sequences	6
Columns	93
Reading direction	reverse
Mean pairwise identity	81.24
Mean single sequence MFE	-36.70
Consensus MFE	-23.67
Energy contribution	-24.61
Covariance contribution	0.93
Combinations/Pair	1.25
Mean z-score	-3.65
Structure conservation index	0.65
SVM decision value	1.54
SVM RNA-class probability	0.962644
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15113650 93 - 27905053
CCCACAUUUUGGGGCGGCGUAAAUGAGAGCCGCCAGUGGAAGUGGUGCGCAUAAAAUGGCGCCACUCCCAAAAUAGGCAUCUUGUAAGCGCCA
((((.....))))..(((((..(..((((((.....(((.((((((((.(((...))))))))))).))).....))).)))..)..))))). ( -44.20)
>DroSim_CAF1 36548 93 - 1
CCCACAUUUUGGGGCGGCGUAAAUGAGAGCCGCCAGUGGAAGUGGUGCGCAUAAAAUGGCGCCACUCCCAAAAUAGGCAUCUUGUAAGCGCCA
((((.....))))..(((((..(..((((((.....(((.((((((((.(((...))))))))))).))).....))).)))..)..))))). ( -44.20)
>DroEre_CAF1 37232 93 - 1
CCCACAUUUUGGGGCGGCGCAAAUGAGAGCCGCCGGUGUAAGUGGUGCGCAUAAAAUGGCGCCACUCCCAAAAUAGGCAUCUUGUAAGCGCCA
((((.....))))..(((((..(..((((((.....((..((((((((.(((...)))))))))))..)).....))).)))..)..))))). ( -43.30)
>DroWil_CAF1 28998 76 - 1
UGCACAUUUUGG-GUGGUGUAAAUGAGGUUUG----------------GAGUCAAAAGGCGCCACACCCAAAAUAGGCAACUUGUAAGCGCCA
(((..(((((((-(((((....))......((----------------(.(((....))).)))))))))))))..))).............. ( -22.20)
>DroYak_CAF1 31118 93 - 1
UCCACAUUUUGGGGCGGCGUAAAUGAGAGCCGCCGGUGGAAGUGGUGCGCAUAAAAUGGCGCCACUCCCAAAAUAGGCAUCUUGUAAGCGCCA
((((.....))))..(((((..(..((((((.....(((.((((((((.(((...))))))))))).))).....))).)))..)..))))). ( -41.40)
>DroAna_CAF1 36995 80 - 1
GCCACAUUUUGGGGCGGCGUAAAUGAGAGGUGCAUGGGG-------------AAAAAGGCGCCACUCCCAAAAUAGGUAGCCUGCAAGCGCCA
(((.(.....).)))(((((....(((.(((((......-------------......))))).)))......((((...))))...))))). ( -24.90)
>consensus
CCCACAUUUUGGGGCGGCGUAAAUGAGAGCCGCCAGUGGAAGUGGUGCGCAUAAAAUGGCGCCACUCCCAAAAUAGGCAUCUUGUAAGCGCCA
.....(((((((((.(((((........(((((((.......))))).))........))))).).)))))))).(((...........))). (-23.67 = -24.61 +   0.93)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:04:55 2006