Locus 10091

Sequence ID	3R_DroMel_CAF1
Location	27,043,286 – 27,043,403
Length	117
Max. P	0.913842

overview

Window 5

Location	27,043,286 – 27,043,377
Length	91
Sequences	6
Columns	106
Reading direction	reverse
Mean pairwise identity	77.89
Mean single sequence MFE	-27.14
Consensus MFE	-21.97
Energy contribution	-22.08
Covariance contribution	0.11
Combinations/Pair	1.06
Mean z-score	-1.55
Structure conservation index	0.81
SVM decision value	1.09
SVM RNA-class probability	0.913842
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 27043286 91 - 27905053
UGCAAACUAGCAUCUGGGGCCCACACAACGAGUAUCUGAUUACUCCA-CAAACCAUUGCCCCGGGAAGGUCUGAGAAUCGGCCGAGCCA-GC-U------------
......((.((.((((((((.........(((((......)))))..-.........))))))))..((((........))))..)).)-).-.------------ ( -25.95)
>DroPse_CAF1 102724 98 - 1
UACAAACUAGCAUCUGGGGCACACACAACGAGUAUCUGAUUACUCUU-----ACUUUGCCCCGGGAAGGUCUGAGAUUUGGCCAAGCCU-CC-UUGU-GUUGUUAC
(((((....((.(((((((((........(((((......)))))..-----....)))))))))..((((........))))..))..-..-))))-)....... ( -29.74)
>DroGri_CAF1 125090 98 - 1
UACAAUCUAGCAUCUGGGGCACACACAACGAGUAUCUGAUUACUCU-AUAA----AAGCCCCGGGAAGGUCUGAGAAUUGGUCAAAGCU-CCCUUGUUUGUGUG--
.((((...(((.((((((((.........(((((......))))).-....----..))))))))..(..(........)..)...)))-...)))).......-- ( -25.39)
>DroWil_CAF1 99752 83 - 1
UGCAAUCUAGCAUCUGGGGCACACAUAACGAGUAUCUGAUUACUCU-------CUUUGCCCCGGGAAGGUCUGAGAAUUGGUCGAAGCU-U---------------
........(((.(((((((((........(((((......))))).-------...)))))))))..(..(........)..)...)))-.--------------- ( -24.30)
>DroAna_CAF1 101897 90 - 1
UACAAUCCAGCAUCUGGGGCACACACAACGAGUAUCUGAUUACUCUC-UUA--UUUUGCCCCGGGAAGGUCUGAGAAUCGGCCAAGCCAUGU-U------------
.........((.(((((((((........(((((......)))))..-...--...)))))))))..((((........))))..)).....-.------------ ( -27.69)
>DroPer_CAF1 96438 98 - 1
UACAAACUAGCAUCUGGGGCACACACAACGAGUAUCUGAUUACUCUU-----ACUUUGCCCCGGGAAGGUCUGAGAUUUGGCCAAGCCU-CC-UUGU-GUUGUUAC
(((((....((.(((((((((........(((((......)))))..-----....)))))))))..((((........))))..))..-..-))))-)....... ( -29.74)
>consensus
UACAAACUAGCAUCUGGGGCACACACAACGAGUAUCUGAUUACUCU_______CUUUGCCCCGGGAAGGUCUGAGAAUUGGCCAAGCCU_CC_U____________
............(((((((((........(((((......)))))...........)))))))))..((((........))))....................... (-21.97 = -22.08 +   0.11)

alignment

secondary structure

dotplot

Window 6

Location	27,043,298 – 27,043,403
Length	105
Sequences	6
Columns	107
Reading direction	reverse
Mean pairwise identity	81.48
Mean single sequence MFE	-29.95
Consensus MFE	-23.39
Energy contribution	-23.89
Covariance contribution	0.50
Combinations/Pair	1.04
Mean z-score	-2.16
Structure conservation index	0.78
SVM decision value	0.95
SVM RNA-class probability	0.887777
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 27043298 105 - 27905053
CUUGG-GCUUCUUUUCCUCCAGUCAGUUGCAAACUAGCAUCUGGGGCCCACACAACGAGUAUCUGAUUACUCCA-CAAACCAUUGCCCCGGGAAGGUCUGAGAAUCG
((..(-(((...(((((.......((.(((......))).))(((((.........(((((......)))))..-.........))))))))))))))..))..... ( -30.15)
>DroPse_CAF1 102747 102 - 1
CCCGGCUCUUCACCUCCUUCAGUCAGUUACAAACUAGCAUCUGGGGCACACACAACGAGUAUCUGAUUACUCUU-----ACUUUGCCCCGGGAAGGUCUGAGAUUUG
..(((.(((.((...(((((.(..(((.....)))..)..((((((((........(((((......)))))..-----....)))))))))))))..))))).))) ( -30.54)
>DroWil_CAF1 99762 93 - 1
--UGG----UCA-GUUCUUCAGUCAGUUGCAAUCUAGCAUCUGGGGCACACAUAACGAGUAUCUGAUUACUCU-------CUUUGCCCCGGGAAGGUCUGAGAAUUG
--...----.((-(((((.(((.(...(((......)))(((((((((........(((((......))))).-------...)))))))))...).)))))))))) ( -31.40)
>DroMoj_CAF1 123669 98 - 1
CA-----CAUACUCUUCUUCAGUCAGUUACAAUCUAGCAUCUGGGGCACACACAACGAGUAUCUGAUUACUCUUAUGA----UUGCCCCGGGAAGGUCUGAGAUUUG
..-----....(((.(((((.....((((.....))))..((((((((..((.((.(((((......))))))).)).----.)))))))))))))...)))..... ( -30.20)
>DroAna_CAF1 101910 102 - 1
AUUUG-UCUC-GUCGCUUACAGUCAGUUACAAUCCAGCAUCUGGGGCACACACAACGAGUAUCUGAUUACUCUC-UUA--UUUUGCCCCGGGAAGGUCUGAGAAUCG
.....-((((-(..((((.......(((.......))).(((((((((........(((((......)))))..-...--...))))))))).)))).))))).... ( -26.89)
>DroPer_CAF1 96461 102 - 1
CCCGGCUCUUCACCUCCUUCAGUCAGUUACAAACUAGCAUCUGGGGCACACACAACGAGUAUCUGAUUACUCUU-----ACUUUGCCCCGGGAAGGUCUGAGAUUUG
..(((.(((.((...(((((.(..(((.....)))..)..((((((((........(((((......)))))..-----....)))))))))))))..))))).))) ( -30.54)
>consensus
CCUGG_UCUUCAUCUCCUUCAGUCAGUUACAAACUAGCAUCUGGGGCACACACAACGAGUAUCUGAUUACUCUU______CUUUGCCCCGGGAAGGUCUGAGAAUUG
.................(((((.(.((((.....)))).(((((((((........(((((......)))))...........)))))))))...).)))))..... (-23.39 = -23.89 +   0.50)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:48:40 2006