Locus 3105

Sequence ID	X_DroMel_CAF1
Location	8,281,478 – 8,281,612
Length	134
Max. P	0.639773

overview

Window 6

Location	8,281,478 – 8,281,578
Length	100
Sequences	6
Columns	104
Reading direction	reverse
Mean pairwise identity	80.59
Mean single sequence MFE	-33.48
Consensus MFE	-23.79
Energy contribution	-23.93
Covariance contribution	0.14
Combinations/Pair	1.19
Mean z-score	-1.15
Structure conservation index	0.71
SVM decision value	-0.03
SVM RNA-class probability	0.516564
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8281478 100 - 22224390
GCGCGUCAUGCCGGCGUCCUGGAGCAGCGGGGGCAGCCUGCUGCCCUUUCGCGUUUCCACCACCACAAAGGUGAGCCUAGCUAACUUAAGUA----CCCAGAAC
..(((((.....))))).(((((((.((((((((((....)))))))..)))........((((.....))))......))).((....)).----.))))... ( -35.00)
>DroSec_CAF1 2860 100 - 1
GCGCGUCAUGCCGGCAUCUUGGAGCAGCGGGGGCAGUCUGCUGCCGUUUCGCGUUUCCACCACCACAAAGGUGAGCUUAGCUAACUUAGAAA----UACAGACU
....(((..((.(((....(((((..((((((((((....)))))..)))))..))))).((((.....)))).)))..)).....((....----))..))). ( -30.30)
>DroSim_CAF1 2824 100 - 1
GCGCGUCAUGCCGGCAUCUUGGAGCAGCGGGGGCAGUCUGCUGCCAUUUCGCGUUUCCACCACCACAAAGGUGAGCUUAGCUAACUUAAGUA----GCCAGACU
....(((.....(((....(((((..((((.(((((....)))))...))))..))))).((((.....)))).)))..((((.(....)))----))..))). ( -32.70)
>DroEre_CAF1 5992 100 - 1
CCGUGUCAUGCCGGCAUCCUGGACAAGCGGGGGCAGCCUGCUGCCCUUCCGCGUUUCCACCACCACAAAGGUGGGAUAAUUUACCAUAAGUA----CACAGACU
..(((((.((((((....)))).)).((((((((((....))))))..))))..(((((((........))))))).............).)----)))..... ( -37.30)
>DroYak_CAF1 1597 104 - 1
GCGUGUCAUGCCGGCAUCCUGGACUAGCGGGGGCAGCCUGCUGCCCUUUCGCGUUUCCACCACCACAAAGGUGGGCUUAUUUACCUAAAGUAUUAAUAAAGACU
....(((.....(((....((((...((((((((((....)))))))..)))...))))(((((.....))))))))(((((.....)))))........))). ( -35.50)
>DroAna_CAF1 2916 100 - 1
GCGCAUUAUGCCCGCCACCUGGACCAGUGGUGGCGGCCUCCUGCCCUUUCGCAUCUCCACCACCACAAAGGUAGGCCUAGAUAGACUCAUAU----CCUAGACC
(.((.....)).)(((((((......(((((((.((.....(((......)))...)).)))))))..)))).)))(((((((......)))----.))))... ( -30.10)
>consensus
GCGCGUCAUGCCGGCAUCCUGGACCAGCGGGGGCAGCCUGCUGCCCUUUCGCGUUUCCACCACCACAAAGGUGAGCUUAGCUAACUUAAGUA____CACAGACU
............(((....((((...((((((((((....)))))..)))))...)))).((((.....)))).)))........................... (-23.79 = -23.93 +   0.14)

alignment

secondary structure

dotplot

Window 7

Location	8,281,501 – 8,281,612
Length	111
Sequences	6
Columns	117
Reading direction	reverse
Mean pairwise identity	83.19
Mean single sequence MFE	-45.68
Consensus MFE	-33.39
Energy contribution	-33.12
Covariance contribution	-0.27
Combinations/Pair	1.24
Mean z-score	-1.82
Structure conservation index	0.73
SVM decision value	0.22
SVM RNA-class probability	0.639773
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8281501 111 - 22224390
-----AUCCAAG-GCGUAGUCAUCAUAGCCGCAGGAUGCAGCGCGUCAUGCCGGCGUCCUGGAGCAGCGGGGGCAGCCUGCUGCCCUUUCGCGUUUCCACCACCACAAAGGUGAGCC
-----......(-((............((((((.(((((...))))).)).))))....(((((..((((((((((....)))))))..)))..))))).((((.....)))).))) ( -45.60)
>DroSec_CAF1 2883 111 - 1
-----AUCCAAG-GCGUAGUCAUCGUAGCCGCAGGAUGCAGCGCGUCAUGCCGGCAUCUUGGAGCAGCGGGGGCAGUCUGCUGCCGUUUCGCGUUUCCACCACCACAAAGGUGAGCU
-----.((((((-(((.......))).((((((.(((((...))))).)).))))..))))))((.((((((((((....)))))..)))))........((((.....)))).)). ( -44.70)
>DroSim_CAF1 2847 111 - 1
-----AUCCAAG-GCGUAGUCAUCGUAGCCGCAGGAUGCAGCGCGUCAUGCCGGCAUCUUGGAGCAGCGGGGGCAGUCUGCUGCCAUUUCGCGUUUCCACCACCACAAAGGUGAGCU
-----.((((((-(((.......))).((((((.(((((...))))).)).))))..))))))((.((((.(((((....)))))...))))........((((.....)))).)). ( -45.20)
>DroEre_CAF1 6015 111 - 1
-----AUCCACG-GCGGAAUCAUACUAACCGCAGGAUGCACCGUGUCAUGCCGGCAUCCUGGACAAGCGGGGGCAGCCUGCUGCCCUUCCGCGUUUCCACCACCACAAAGGUGGGAU
-----.(((...-((((...........))))(((((((.(.((.....)).)))))))))))...((((((((((....))))))..))))..(((((((........))))))). ( -49.10)
>DroYak_CAF1 1624 111 - 1
-----AUCCACA-GCGGAAUCAUUUUAGCCGCAGGAUGCAGCGUGUCAUGCCGGCAUCCUGGACUAGCGGGGGCAGCCUGCUGCCCUUUCGCGUUUCCACCACCACAAAGGUGGGCU
-----......(-((((((.(....(((.(.((((((((.((((...))))..))))))))).)))((((((((((....)))))))..)))).)))).(((((.....)))))))) ( -51.40)
>DroAna_CAF1 2939 113 - 1
AAGUGUUCCAAGAGUGAGGUGACCA----CGAAGGAUGCAGCGCAUUAUGCCCGCCACCUGGACCAGUGGUGGCGGCCUCCUGCCCUUUCGCAUCUCCACCACCACAAAGGUAGGCC
.............(.((((((....----((((((..((((.((.....))((((((((.........))))))))....)))).))))))))))))).(((((.....))).)).. ( -38.10)
>consensus
_____AUCCAAG_GCGUAGUCAUCAUAGCCGCAGGAUGCAGCGCGUCAUGCCGGCAUCCUGGACCAGCGGGGGCAGCCUGCUGCCCUUUCGCGUUUCCACCACCACAAAGGUGAGCU
.............(((.............)))(((((((...((.....))..)))))))(((...((((((((((....)))))..)))))...)))..((((.....)))).... (-33.39 = -33.12 +  -0.27)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:51:03 2006