Locus 3727

Sequence ID	X_DroMel_CAF1
Location	9,931,825 – 9,932,001
Length	176
Max. P	0.875136

overview

Window 9

Location	9,931,825 – 9,931,936
Length	111
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	86.47
Mean single sequence MFE	-22.73
Consensus MFE	-16.11
Energy contribution	-15.54
Covariance contribution	-0.56
Combinations/Pair	1.18
Mean z-score	-1.86
Structure conservation index	0.71
SVM decision value	0.46
SVM RNA-class probability	0.744407
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9931825 111 - 22224390
UUCUUUAUUUAGCAAUUUUGUUGGUUGCGCGUGCGCGCAACUCAC---ACGGCACAGAAAA----AAAAGAAUGAAA--ACAGAACGAAACCAACGAAAACAAACUCCGCUAAAAGAAAC
((((((...((((.....(((.((((((((....)))))))).))---)............----............--......((.......))............)))))))))).. ( -22.40)
>DroSec_CAF1 1424 115 - 1
UUCUUUAUUUAGCAAUUUCGCUGGUUGCGCGUGCGCGCAACUCAC---ACGGCACAGAAAAAAAAAAAAGAAUGAAA--ACAGAACGAAACCACCGAAAACAAACUCCGCUAAAAGAAAC
((((((...((((......(((((((((((....)))))))....---.))))........................--......((.......))............)))))))))).. ( -22.80)
>DroEre_CAF1 1445 117 - 1
UUCUUUAUUUAGAAAUUUCGCUGGUUGCGCGUGCGUGCAACUCACUGCAAUGCACAGAAAAAAAAAA---GAGGGCACCACAGAACGAAACCACCGAAAAAAAACUCCGCUUAAAAAAAC
((((......)))).(((((.(((((.((.(((((((((......))).))))))............---..((...))......)).))))).)))))..................... ( -24.20)
>DroYak_CAF1 1508 112 - 1
UUCUUUUUUUGGCAAUUUUGCUGGUUGCGCGUGCGUGCAACUCAC---ACUGCACAGAAAAAAAAAA---AACGAAA--ACAGAACGAAACCACCGACAACAAACUCCGCUAAAAGAAAC
...((((((((((.....((((((((((((....))))))).)).---...))).............---.......--......((.......))............)))))))))).. ( -21.50)
>consensus
UUCUUUAUUUAGCAAUUUCGCUGGUUGCGCGUGCGCGCAACUCAC___ACGGCACAGAAAAAAAAAA___AAUGAAA__ACAGAACGAAACCACCGAAAACAAACUCCGCUAAAAGAAAC
...(((.((((((..(((((((((((((((....)))))))((.............))......................)))..))))).....((........)).)))))).))).. (-16.11 = -15.54 +  -0.56)

alignment

secondary structure

dotplot

Window 0

Location	9,931,896 – 9,932,001
Length	105
Sequences	3
Columns	117
Reading direction	forward
Mean pairwise identity	87.61
Mean single sequence MFE	-35.83
Consensus MFE	-31.63
Energy contribution	-32.30
Covariance contribution	0.67
Combinations/Pair	1.00
Mean z-score	-2.12
Structure conservation index	0.88
SVM decision value	0.89
SVM RNA-class probability	0.875136
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9931896 105 + 22224390
UUGCGCGCACGCGCAACCAACAAAAUUGCUAAAUAAAGAAAUUCAAACGUUGCAAGUGGCAGCGUUUCUCGACGUCAACGGCGACGCAGCGCAGGCGCAGCAGCA------------
((((((((..((((..............................(((((((((.....)))))))))...(.((((......))))).))))..)))).))))..------------ ( -35.20)
>DroSec_CAF1 1499 105 + 1
UUGCGCGCACGCGCAACCAGCGAAAUUGCUAAAUAAAGAAAUUCAAACGUUGCAAGUGGCAGCGUUUCUCGACGUCAACGGCGACGCAGCGCAGGCGCAGCAGCA------------
((((((((..((((....((((....)))).................((((((...((((..((.....))..))))...))))))..))))..)))).))))..------------ ( -36.90)
>DroYak_CAF1 1580 117 + 1
UUGCACGCACGCGCAACCAGCAAAAUUGCCAAAAAAAGAAAUACAAACGUUGCAAGUGGCAGCGUUUUUCGACGUCGACGGCGACGCAGCGCAGGCGCAACAGCAGCAGUAGCAGCA
((((((((..((((.....(((....)))........((((....((((((((.....))))))))))))(.(((((....)))))).))))..))((....))....)).)))).. ( -35.40)
>consensus
UUGCGCGCACGCGCAACCAGCAAAAUUGCUAAAUAAAGAAAUUCAAACGUUGCAAGUGGCAGCGUUUCUCGACGUCAACGGCGACGCAGCGCAGGCGCAGCAGCA____________
((((((((..((((..............................(((((((((.....)))))))))...(.((((......))))).))))..)))).)))).............. (-31.63 = -32.30 +   0.67)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:06:44 2006