Locus 6304

Sequence ID	X_DroMel_CAF1
Location	15,968,500 – 15,968,620
Length	120
Max. P	0.997441

overview

Window 7

Location	15,968,500 – 15,968,620
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	96.33
Mean single sequence MFE	-35.78
Consensus MFE	-30.80
Energy contribution	-30.52
Covariance contribution	-0.28
Combinations/Pair	1.05
Mean z-score	-1.52
Structure conservation index	0.86
SVM decision value	0.62
SVM RNA-class probability	0.802838
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15968500 120 + 22224390
GCAGUGUCCGGCAAUUGGAUGUGAAUAUAAGAUGGCAACAAAUUGCCAUAUGGCCAUGGCAAUGGGUAUCUGCGAUCGUCAUAUUCGGGUAAUAUUCGCUCGUAAAAGUAUCACCGACCA
...(.(((.((.....((((((((......(((.(((((..((((((((......))))))))..))...))).))).))))))))((((.......))))............)))))). ( -32.90)
>DroSec_CAF1 36563 120 + 1
GCAGUGUCCGGCAAUUGGAUGUGAAUAUAAGAUGGCAACAAAUUGCCAUAUGGCCAUGGCAAUGGGUAUCUGCGAUCGUCAUAUUCGGGUAAUAUUCGCUCGUAAAAGUAUCACCGACCA
...(.(((.((.....((((((((......(((.(((((..((((((((......))))))))..))...))).))).))))))))((((.......))))............)))))). ( -32.90)
>DroSim_CAF1 27624 120 + 1
GCAGUGUCCGGCAAUUGGAUGUGAAUAUAAGAUGGCAACAAAUUGCCAUAUGGCCAUGGCAAUGGGCAUCUGCGAUCGUCAUAUUCGGGUAAUAUUCGCUCGUAAAAGUAUCACCGACCA
((((((((((((((((.(.(((.(........).))).).))))))).....((....))...))))).))))(.(((..((((((((((.......)))))....)))))...))).). ( -33.70)
>DroEre_CAF1 35450 120 + 1
GCAGUGUCAGGCGAUAGGAUGCGAAUAUAAGAUGGCAACAAAUUGCCAUAUGGCCAUGGCAAUGGGUGUCUGUGAUCGUCAUAUUCGGGUAAUAUUCGCUCGUAAAGGUAUCACCGACCA
...(.(((.(((((((..((.(((((((..(((.((((((.((((((((......))))))))...))).))).)))...))))))).))..)).)))))......((.....)))))). ( -39.80)
>DroYak_CAF1 19353 120 + 1
GCAGUGUCCGGCAAUAGGAUGCGAAUAUGAGAUGGCAACAAAUUGCCAUAUGGCCAUGGCAAUGGGUGUCUGUGAUCGUCAUAUUCGGGUAAUAUUCGCUCGUAAAAGUAUCACCGACCA
...((((((.......))))))(((((((((((.((((((.((((((((......))))))))...))).))).))).)))))))).(((.(((((..........))))).)))..... ( -39.60)
>consensus
GCAGUGUCCGGCAAUUGGAUGUGAAUAUAAGAUGGCAACAAAUUGCCAUAUGGCCAUGGCAAUGGGUAUCUGCGAUCGUCAUAUUCGGGUAAUAUUCGCUCGUAAAAGUAUCACCGACCA
...(.(((.((......(((((((((((..(((.(((((..((((((((......))))))))..))...))).)))...))))))((((.......))))......))))).)))))). (-30.80 = -30.52 +  -0.28)

alignment

secondary structure

dotplot

Window 8

Location	15,968,500 – 15,968,620
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	96.33
Mean single sequence MFE	-33.48
Consensus MFE	-30.94
Energy contribution	-31.38
Covariance contribution	0.44
Combinations/Pair	1.03
Mean z-score	-2.02
Structure conservation index	0.92
SVM decision value	2.86
SVM RNA-class probability	0.997441
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15968500 120 - 22224390
UGGUCGGUGAUACUUUUACGAGCGAAUAUUACCCGAAUAUGACGAUCGCAGAUACCCAUUGCCAUGGCCAUAUGGCAAUUUGUUGCCAUCUUAUAUUCACAUCCAAUUGCCGGACACUGC
((..(((..((.(((....)))............((((((((.(((.((((......(((((((((....)))))))))...)))).))))))))))).......))..)))..)).... ( -33.00)
>DroSec_CAF1 36563 120 - 1
UGGUCGGUGAUACUUUUACGAGCGAAUAUUACCCGAAUAUGACGAUCGCAGAUACCCAUUGCCAUGGCCAUAUGGCAAUUUGUUGCCAUCUUAUAUUCACAUCCAAUUGCCGGACACUGC
((..(((..((.(((....)))............((((((((.(((.((((......(((((((((....)))))))))...)))).))))))))))).......))..)))..)).... ( -33.00)
>DroSim_CAF1 27624 120 - 1
UGGUCGGUGAUACUUUUACGAGCGAAUAUUACCCGAAUAUGACGAUCGCAGAUGCCCAUUGCCAUGGCCAUAUGGCAAUUUGUUGCCAUCUUAUAUUCACAUCCAAUUGCCGGACACUGC
((..(((..((.(((....)))............((((((((.(((.((((......(((((((((....)))))))))...)))).))))))))))).......))..)))..)).... ( -33.00)
>DroEre_CAF1 35450 120 - 1
UGGUCGGUGAUACCUUUACGAGCGAAUAUUACCCGAAUAUGACGAUCACAGACACCCAUUGCCAUGGCCAUAUGGCAAUUUGUUGCCAUCUUAUAUUCGCAUCCUAUCGCCUGACACUGC
..((((((((((((((...))).).........(((((((((.(((....((((...(((((((((....))))))))).))))...)))))))))))).....))))))).)))..... ( -33.50)
>DroYak_CAF1 19353 120 - 1
UGGUCGGUGAUACUUUUACGAGCGAAUAUUACCCGAAUAUGACGAUCACAGACACCCAUUGCCAUGGCCAUAUGGCAAUUUGUUGCCAUCUCAUAUUCGCAUCCUAUUGCCGGACACUGC
((..(((..((((((....)))...........(((((((((.(((....((((...(((((((((....))))))))).))))...)))))))))))).....)))..)))..)).... ( -34.90)
>consensus
UGGUCGGUGAUACUUUUACGAGCGAAUAUUACCCGAAUAUGACGAUCGCAGAUACCCAUUGCCAUGGCCAUAUGGCAAUUUGUUGCCAUCUUAUAUUCACAUCCAAUUGCCGGACACUGC
..((((((((((.((........)).))))))).((((((((.(((.((((......(((((((((....)))))))))...)))).)))))))))))..............)))..... (-30.94 = -31.38 +   0.44)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:10:09 2006