Locus 8299

Sequence ID	3R_DroMel_CAF1
Location	22,154,619 – 22,154,779
Length	160
Max. P	0.967480

overview

Window 4

Location	22,154,619 – 22,154,739
Length	120
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	98.33
Mean single sequence MFE	-44.51
Consensus MFE	-43.38
Energy contribution	-43.38
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-2.54
Structure conservation index	0.97
SVM decision value	1.61
SVM RNA-class probability	0.967480
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22154619 120 - 27905053
AGGCGAAAGGGAAACUGUUUUGCGGCCGGGCGAAUCUUUAAACUUGGCCUUGCCCAGAGUGUAUCUCACGGAUAGUAGGUACGUGUGCCUGCACAGAUUUGUAUCCGCAUUCUGGAAAUC
..((((((((....)).))))))(((((((............)))))))....(((((((((.....((((((.(((((((....)))))))....))))))....)))))))))..... ( -43.70)
>DroSec_CAF1 85088 120 - 1
AGGCGAAAGGGAAACUGUUUUGCGGCCGGGCGAAUCUUUAAACUUGGCCUUGCCCAGAGUGUAUCUCUCGGAUAGUAGGUACGUGUGCCUGCACAGAUUUGUAUCCGCAUUCUGGAAAUC
..((((((((....)).))))))(((((((............)))))))....((((((((.......(((((.(((((((....)))))))((......)))))))))))))))..... ( -43.31)
>DroSim_CAF1 79547 120 - 1
AGGCGAAAGGGAAACUGUUUUGCGGCCGGGCGAAUCUUUAAACUUGGCCUUGCCCAGAGUGUAUCUUUCGGAUAGUAGGUACGUGUGCCUGCACAGAUUUGUAUCCGCAUUCUGGGAAUC
..((((((((....)).))))))(((((((............)))))))...(((((((((.......(((((.(((((((....)))))))((......)))))))))))))))).... ( -46.51)
>consensus
AGGCGAAAGGGAAACUGUUUUGCGGCCGGGCGAAUCUUUAAACUUGGCCUUGCCCAGAGUGUAUCUCUCGGAUAGUAGGUACGUGUGCCUGCACAGAUUUGUAUCCGCAUUCUGGAAAUC
..((((((((....)).))))))(((((((............)))))))....((((((((.......(((((.(((((((....)))))))((......)))))))))))))))..... (-43.38 = -43.38 +  -0.00)

alignment

secondary structure

dotplot

Window 5

Location	22,154,659 – 22,154,779
Length	120
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	98.33
Mean single sequence MFE	-38.40
Consensus MFE	-37.29
Energy contribution	-37.73
Covariance contribution	0.45
Combinations/Pair	1.03
Mean z-score	-1.45
Structure conservation index	0.97
SVM decision value	-0.00
SVM RNA-class probability	0.532033
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22154659 120 - 27905053
UAAUGUAAUAAAGCCUGCAGAAUCCGAUUGCGGAAUGCGGAGGCGAAAGGGAAACUGUUUUGCGGCCGGGCGAAUCUUUAAACUUGGCCUUGCCCAGAGUGUAUCUCACGGAUAGUAGGU
............((((((...(((((..((.((.((((((..((((((((....)).))))))..))((((((..((........))..))))))...)))).)).))))))).)))))) ( -38.80)
>DroSec_CAF1 85128 120 - 1
UAAUGUAAUAAAGCCAGCAGAAUCCGAUUGCGGAAUGCGGAGGCGAAAGGGAAACUGUUUUGCGGCCGGGCGAAUCUUUAAACUUGGCCUUGCCCAGAGUGUAUCUCUCGGAUAGUAGGU
............(((.((...((((((....(..((((((..((((((((....)).))))))..))((((((..((........))..)))))).....))))..))))))).)).))) ( -36.20)
>DroSim_CAF1 79587 120 - 1
UAAUGUAAUAAAGCCUGCAGAAUCCGAUUGCGGAAUGCGGAGGCGAAAGGGAAACUGUUUUGCGGCCGGGCGAAUCUUUAAACUUGGCCUUGCCCAGAGUGUAUCUUUCGGAUAGUAGGU
............((((((...((((((....(((((((((..((((((((....)).))))))..))((((((..((........))..))))))...)))).))).)))))).)))))) ( -40.20)
>consensus
UAAUGUAAUAAAGCCUGCAGAAUCCGAUUGCGGAAUGCGGAGGCGAAAGGGAAACUGUUUUGCGGCCGGGCGAAUCUUUAAACUUGGCCUUGCCCAGAGUGUAUCUCUCGGAUAGUAGGU
............((((((...((((((....(..((((((..((((((((....)).))))))..))((((((..((........))..)))))).....))))..))))))).)))))) (-37.29 = -37.73 +   0.45)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:08:17 2006