Locus 2981

Sequence ID	X_DroMel_CAF1
Location	7,927,809 – 7,927,940
Length	131
Max. P	0.945111

overview

Window 0

Location	7,927,809 – 7,927,902
Length	93
Sequences	5
Columns	116
Reading direction	reverse
Mean pairwise identity	72.62
Mean single sequence MFE	-26.10
Consensus MFE	-9.04
Energy contribution	-9.64
Covariance contribution	0.60
Combinations/Pair	1.26
Mean z-score	-2.09
Structure conservation index	0.35
SVM decision value	1.35
SVM RNA-class probability	0.945111
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7927809 93 - 22224390
CCAUUCUUAUCUUCAUGGGU-----UGG----------GCUCUACUCGCCCGACUCUC------UAUAUGGUGAGAGUCCCAUACUUUGACCCAA--UGUUCCAAUCGAAAAAUAA
...............(((((-----(((----------((.......))))(((((((------........))))))).........)))))).--................... ( -26.90)
>DroSec_CAF1 3913 97 - 1
CCACUCUUAUCUUCUUGGGU-----UGG----------GUUCCACUCGCCCGACUCUC--GCUCCUUAUGGGGUGAGCCCCAUACUUUGACCCAA--UGUUCCAAUCGAAAAGUGA
.((((.........((((((-----(((----------((.......))))....(((--(((((....))))))))...........)))))))--..(((.....))).)))). ( -28.50)
>DroSim_CAF1 3063 99 - 1
CCACUCUUAUCUUCUUGGGU-----UGG----------GUUCCACUCACCCGACUCUCUCUCUCCUUAUGGGGUGAGCCCCAUACUUUGACCCAA--UGUUCCAAUCGAAAAGUGA
.((((.........((((((-----(((----------((.......))))...............(((((((....)))))))....)))))))--..(((.....))).)))). ( -27.20)
>DroEre_CAF1 4050 92 - 1
CCACUCCUAUCUUCUUAAGUU----UGG----------GUUCUACUGGGACGA--------UAUGGUAUGGGUUCAGCGCCAUACUUCGACCCAA--UCCUCCAACUGAAAAGUGA
.((((((((.((.....))..----)))----------)......((((.(((--------...((((((((.....).)))))))))).)))).--..............)))). ( -22.10)
>DroYak_CAF1 4225 108 - 1
CCACUCUUAUCUCCUUGGGUUGGGUUGGGUUCUACUUGGUUCUACUGCGUCCA--------CUCCUCAUGGGGUGAGCCCCAUACUUUGACCUCAUAUAUUCCAAUCGAAAUGUGA
.................(((..(((((((.........((......))(..((--------((((....))))))..))))).)).)..)))((((((.(((.....))))))))) ( -25.80)
>consensus
CCACUCUUAUCUUCUUGGGU_____UGG__________GUUCUACUCGCCCGACUCUC___CUCCUUAUGGGGUGAGCCCCAUACUUUGACCCAA__UGUUCCAAUCGAAAAGUGA
(((.....((((....)))).....)))..............((((....................(((((((....))))))).(((((...............))))).)))). ( -9.04 =  -9.64 +   0.60)

alignment

secondary structure

dotplot

Window 1

Location	7,927,845 – 7,927,940
Length	95
Sequences	5
Columns	118
Reading direction	reverse
Mean pairwise identity	68.51
Mean single sequence MFE	-28.17
Consensus MFE	-11.49
Energy contribution	-12.01
Covariance contribution	0.52
Combinations/Pair	1.53
Mean z-score	-1.81
Structure conservation index	0.41
SVM decision value	0.41
SVM RNA-class probability	0.723632
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7927845 95 - 22224390
--UCACUCAUAUAAAUGUAUUACCAAUAACCCAAGGAAUCCCAUUCUUAUCUUCAUGGGU-----UGG----------GCUCUACUCGCCCGACUCUC------UAUAUGGUGAGAGU
--((((.((((((....................((((((...))))))........((((-----(((----------((.......)))))))))..------)))))))))).... ( -25.80)
>DroSec_CAF1 3949 99 - 1
--UCACCCAUAUGGAUGUAUUACCAAUGAGCCGAGGAAACCCACUCUUAUCUUCUUGGGU-----UGG----------GUUCCACUCGCCCGACUCUC--GCUCCUUAUGGGGUGAGC
--((((((...(((........)))..((((.(((........)))..........((((-----(((----------((.......)))))))))..--))))......)))))).. ( -33.20)
>DroSim_CAF1 3099 101 - 1
--UCACCCAUAUACAUGUAUUACCAAUGAGCCGAGGAAACCCACUCUUAUCUUCUUGGGU-----UGG----------GUUCCACUCACCCGACUCUCUCUCUCCUUAUGGGGUGAGC
--((((((.((((.........((((.(((..(((........)))....))).))))((-----(((----------((.......)))))))............)))))))))).. ( -28.10)
>DroEre_CAF1 4086 96 - 1
UGGCACCUUUAUACAUGUAUUACCAACAGCCUUGGGAAUCCCACUCCUAUCUUCUUAAGUU----UGG----------GUUCUACUGGGACGA--------UAUGGUAUGGGUUCAGC
..((..................((((.....))))(((.((((..((((((.(((((.((.----...----------.....))))))).))--------)).))..))))))).)) ( -20.80)
>DroYak_CAF1 4263 110 - 1
UGGCACCUCUACGAAUGCACUACCAAUAGUCCGAGGAAUCCCACUCUUAUCUCCUUGGGUUGGGUUGGGUUCUACUUGGUUCUACUGCGUCCA--------CUCCUCAUGGGGUGAGC
(((.(((.....((((.((...(((((...(((((((..............))))))))))))..)).)))).....))).)))....(..((--------((((....))))))..) ( -32.94)
>consensus
__UCACCCAUAUAAAUGUAUUACCAAUAACCCGAGGAAUCCCACUCUUAUCUUCUUGGGU_____UGG__________GUUCUACUCGCCCGACUCUC___CUCCUUAUGGGGUGAGC
......................(((...(((((((((..............))))))))).....)))................(((((((...................))))))). (-11.49 = -12.01 +   0.52)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:48:16 2006