Locus 8373

Sequence ID	X_DroMel_CAF1
Location	20,793,540 – 20,793,649
Length	109
Max. P	0.999974

overview

Window 1

Location	20,793,540 – 20,793,649
Length	109
Sequences	5
Columns	117
Reading direction	forward
Mean pairwise identity	95.72
Mean single sequence MFE	-20.07
Consensus MFE	-19.11
Energy contribution	-19.11
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-1.51
Structure conservation index	0.95
SVM decision value	1.72
SVM RNA-class probability	0.973715
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20793540 109 + 22224390
--------CUUUUUUACCCGUUCCCACUUCACAACCGUUCCCUUCGAUUUUUCACCCGGUUGCCAUUGCAACGAAUUUAAUCAAAAGUUACAAUUCCAAUUGUCCGCAAGCGGGUCA
--------.......((((((..........((((((...................))))))...((((....(((((......)))))(((((....)))))..)))))))))).. ( -19.11)
>DroSec_CAF1 122085 109 + 1
--------CUUUUUUACCCGUUCCCGCUUCACAACCGUUCCCUUCGAUUUUUCACCCGGUUGCCAUUGCAACGAAUUUAAUCAAAAGUUACAAUUCCAAUUGUCCGCAAGCGGGUCA
--------...........(..((((((((.((((((...................)))))).....((((.(((((((((.....)))).)))))...))))..).))))))).). ( -20.31)
>DroSim_CAF1 59097 109 + 1
--------CUUUUUUACCCGUUCCCGCUUCACAACCGUUCCCUUCGAUUUUUCACCCGGUUGCCAUUGCAACGAAUUUAAUCAAAAGUUACAAUUCCAAUUGUCCGCAAGCGGGUCA
--------...........(..((((((((.((((((...................)))))).....((((.(((((((((.....)))).)))))...))))..).))))))).). ( -20.31)
>DroEre_CAF1 44680 109 + 1
--------CUUUUUUACCCGUUCCCGCUUCACAACCGUUCCCUUCGAUUUUUCACCCGGUUGCCAUUGCAACGAAUUUAAUCAAAAGUUACAAUUCCAAUUGUCCGCAAGCGGGUCA
--------...........(..((((((((.((((((...................)))))).....((((.(((((((((.....)))).)))))...))))..).))))))).). ( -20.31)
>DroYak_CAF1 96859 117 + 1
CGCUCUACCUUCUCUACCCGUUCCCGCUUCACAACCGUUCUCUUCGAUUUUUCACCCGGUUGCCAUUGCAACGAAUUUAAUCAAAAGUUACAAUUCCAAUUGUCCGCAAGCGGGUCA
...................(..((((((((.((((((...................)))))).....((((.(((((((((.....)))).)))))...))))..).))))))).). ( -20.31)
>consensus
________CUUUUUUACCCGUUCCCGCUUCACAACCGUUCCCUUCGAUUUUUCACCCGGUUGCCAUUGCAACGAAUUUAAUCAAAAGUUACAAUUCCAAUUGUCCGCAAGCGGGUCA
...............((((((..........((((((...................))))))...((((....(((((......)))))(((((....)))))..)))))))))).. (-19.11 = -19.11 +  -0.00)

alignment

secondary structure

dotplot

Window 2

Location	20,793,540 – 20,793,649
Length	109
Sequences	5
Columns	117
Reading direction	reverse
Mean pairwise identity	95.72
Mean single sequence MFE	-32.50
Consensus MFE	-32.14
Energy contribution	-32.18
Covariance contribution	0.04
Combinations/Pair	1.03
Mean z-score	-2.66
Structure conservation index	0.99
SVM decision value	5.11
SVM RNA-class probability	0.999974
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20793540 109 - 22224390
UGACCCGCUUGCGGACAAUUGGAAUUGUAACUUUUGAUUAAAUUCGUUGCAAUGGCAACCGGGUGAAAAAUCGAAGGGAACGGUUGUGAAGUGGGAACGGGUAAAAAAG--------
..(((((((..(......(((.((((((..(((((((((..(((((((((....)))).)))))....)))))))))..)))))).))).)..))..))))).......-------- ( -32.20)
>DroSec_CAF1 122085 109 - 1
UGACCCGCUUGCGGACAAUUGGAAUUGUAACUUUUGAUUAAAUUCGUUGCAAUGGCAACCGGGUGAAAAAUCGAAGGGAACGGUUGUGAAGCGGGAACGGGUAAAAAAG--------
..((((((((((......(((.((((((..(((((((((..(((((((((....)))).)))))....)))))))))..)))))).))).)))))..))))).......-------- ( -33.60)
>DroSim_CAF1 59097 109 - 1
UGACCCGCUUGCGGACAAUUGGAAUUGUAACUUUUGAUUAAAUUCGUUGCAAUGGCAACCGGGUGAAAAAUCGAAGGGAACGGUUGUGAAGCGGGAACGGGUAAAAAAG--------
..((((((((((......(((.((((((..(((((((((..(((((((((....)))).)))))....)))))))))..)))))).))).)))))..))))).......-------- ( -33.60)
>DroEre_CAF1 44680 109 - 1
UGACCCGCUUGCGGACAAUUGGAAUUGUAACUUUUGAUUAAAUUCGUUGCAAUGGCAACCGGGUGAAAAAUCGAAGGGAACGGUUGUGAAGCGGGAACGGGUAAAAAAG--------
..((((((((((......(((.((((((..(((((((((..(((((((((....)))).)))))....)))))))))..)))))).))).)))))..))))).......-------- ( -33.60)
>DroYak_CAF1 96859 117 - 1
UGACCCGCUUGCGGACAAUUGGAAUUGUAACUUUUGAUUAAAUUCGUUGCAAUGGCAACCGGGUGAAAAAUCGAAGAGAACGGUUGUGAAGCGGGAACGGGUAGAGAAGGUAGAGCG
..((((((((((..(((((((...((......(((((((..(((((((((....)))).)))))....)))))))))...)))))))...)))))..)))))............... ( -29.50)
>consensus
UGACCCGCUUGCGGACAAUUGGAAUUGUAACUUUUGAUUAAAUUCGUUGCAAUGGCAACCGGGUGAAAAAUCGAAGGGAACGGUUGUGAAGCGGGAACGGGUAAAAAAG________
..((((((((((..(((((((.........(((((((((..(((((((((....)))).)))))....)))))))))...)))))))...)))))..)))))............... (-32.14 = -32.18 +   0.04)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:02:22 2006