Locus 2903

Sequence ID	X_DroMel_CAF1
Location	7,769,540 – 7,769,692
Length	152
Max. P	0.936252

overview

Window 5

Location	7,769,540 – 7,769,654
Length	114
Sequences	4
Columns	118
Reading direction	reverse
Mean pairwise identity	96.84
Mean single sequence MFE	-27.12
Consensus MFE	-27.14
Energy contribution	-26.95
Covariance contribution	-0.19
Combinations/Pair	1.03
Mean z-score	-1.44
Structure conservation index	1.00
SVM decision value	0.05
SVM RNA-class probability	0.559535
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7769540 114 - 22224390
----ACUGAAGCAGAGGCAGCUGAAACUGAAGCUGAAUCUGAAUCGAAAUCAGUAUCUGAAUCAGAAGAGGAAUAUGAAUAUAUGUUAUGUAUUUGUAUUAUUGUCGUUGUCGUUGUC
----.((((..((((..(((((........)))))..))))........((((...)))).))))..((.(((((..(((((((...)))))))..)))..)).))............ ( -27.30)
>DroSec_CAF1 3664 114 - 1
----ACUGAAGCAGAGGCAGCUGAAACUGAAGCUGAGUCUGAAUCGAAAUCAGUAUCUGAAUCAGAAGAGGAAUAUGAAUAUAUGUUAUGUAUUUGUAUUAUUGUCGUUGUCGUUGUC
----.((((..((((..(((((........)))))..))))........((((...)))).))))..((.(((((..(((((((...)))))))..)))..)).))............ ( -26.80)
>DroSim_CAF1 3696 114 - 1
----ACUGAAGCAGAGGCAGCUGAAACUGAAGCUGAGUCUGAAUCGAAAUCAGUAUCUGAAUCAGAAGAGGAAUAUGAAUAUAUGUUAUGUAUUUGUAUUAUUGUCGUUGUCGUUGUC
----.((((..((((..(((((........)))))..))))........((((...)))).))))..((.(((((..(((((((...)))))))..)))..)).))............ ( -26.80)
>DroYak_CAF1 3775 118 - 1
UGAAACUGAAGCAGAGGCAGCUGAAACUGAAGCUGAAUCUGAAUCGAAAUCAGUAACUGAAUCAGAAGAGAAAUAUGAAUAUAUGUUAUGUAUUUGUAUUAUUGUCGUUGUCGUUGUC
(((...(((..((((..(((((........)))))..))))..)))...))).((((.((....((.((..((((..(((((((...)))))))..)))).)).))....)))))).. ( -27.60)
>consensus
____ACUGAAGCAGAGGCAGCUGAAACUGAAGCUGAAUCUGAAUCGAAAUCAGUAUCUGAAUCAGAAGAGGAAUAUGAAUAUAUGUUAUGUAUUUGUAUUAUUGUCGUUGUCGUUGUC
.....((((..((((..(((((........)))))..))))........((((...)))).))))..((.(((((..(((((((...)))))))..)))..)).))............ (-27.14 = -26.95 +  -0.19)

alignment

secondary structure

dotplot

Window 6

Location	7,769,580 – 7,769,692
Length	112
Sequences	3
Columns	112
Reading direction	forward
Mean pairwise identity	99.40
Mean single sequence MFE	-30.60
Consensus MFE	-30.60
Energy contribution	-30.60
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-2.14
Structure conservation index	1.00
SVM decision value	1.25
SVM RNA-class probability	0.936252
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7769580 112 + 22224390
UCAUAUUCCUCUUCUGAUUCAGAUACUGAUUUCGAUUCAGAUUCAGCUUCAGUUUCAGCUGCCUCUGCUUCAGUUUCAGUGUUUUUGGCCUGGCCUUUUUGGGGGCACUGCG
....................(((((((((..(.((..((((..(((((........)))))..))))..)).)..)))))))))...((...(((((....)))))...)). ( -30.60)
>DroSec_CAF1 3704 112 + 1
UCAUAUUCCUCUUCUGAUUCAGAUACUGAUUUCGAUUCAGACUCAGCUUCAGUUUCAGCUGCCUCUGCUUCAGUUUCAGUGUUUUUGGCCUGGCCUUUUUGGGGGCACUGCG
....................(((((((((..(.((..((((..(((((........)))))..))))..)).)..)))))))))...((...(((((....)))))...)). ( -30.60)
>DroSim_CAF1 3736 112 + 1
UCAUAUUCCUCUUCUGAUUCAGAUACUGAUUUCGAUUCAGACUCAGCUUCAGUUUCAGCUGCCUCUGCUUCAGUUUCAGUGUUUUUGGCCUGGCCUUUUUGGGGGCACUGCG
....................(((((((((..(.((..((((..(((((........)))))..))))..)).)..)))))))))...((...(((((....)))))...)). ( -30.60)
>consensus
UCAUAUUCCUCUUCUGAUUCAGAUACUGAUUUCGAUUCAGACUCAGCUUCAGUUUCAGCUGCCUCUGCUUCAGUUUCAGUGUUUUUGGCCUGGCCUUUUUGGGGGCACUGCG
....................(((((((((..(.((..((((..(((((........)))))..))))..)).)..)))))))))...((...(((((....)))))...)). (-30.60 = -30.60 +  -0.00)

alignment

secondary structure

dotplot

Window 7

Location	7,769,580 – 7,769,692
Length	112
Sequences	3
Columns	112
Reading direction	reverse
Mean pairwise identity	99.40
Mean single sequence MFE	-28.47
Consensus MFE	-28.47
Energy contribution	-28.47
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-2.09
Structure conservation index	1.00
SVM decision value	1.18
SVM RNA-class probability	0.927321
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7769580 112 - 22224390
CGCAGUGCCCCCAAAAAGGCCAGGCCAAAAACACUGAAACUGAAGCAGAGGCAGCUGAAACUGAAGCUGAAUCUGAAUCGAAAUCAGUAUCUGAAUCAGAAGAGGAAUAUGA
.((...(((........)))...)).......(((((...(((..((((..(((((........)))))..))))..)))...))))).((((...))))............ ( -28.80)
>DroSec_CAF1 3704 112 - 1
CGCAGUGCCCCCAAAAAGGCCAGGCCAAAAACACUGAAACUGAAGCAGAGGCAGCUGAAACUGAAGCUGAGUCUGAAUCGAAAUCAGUAUCUGAAUCAGAAGAGGAAUAUGA
.((...(((........)))...)).......(((((...(((..((((..(((((........)))))..))))..)))...))))).((((...))))............ ( -28.30)
>DroSim_CAF1 3736 112 - 1
CGCAGUGCCCCCAAAAAGGCCAGGCCAAAAACACUGAAACUGAAGCAGAGGCAGCUGAAACUGAAGCUGAGUCUGAAUCGAAAUCAGUAUCUGAAUCAGAAGAGGAAUAUGA
.((...(((........)))...)).......(((((...(((..((((..(((((........)))))..))))..)))...))))).((((...))))............ ( -28.30)
>consensus
CGCAGUGCCCCCAAAAAGGCCAGGCCAAAAACACUGAAACUGAAGCAGAGGCAGCUGAAACUGAAGCUGAGUCUGAAUCGAAAUCAGUAUCUGAAUCAGAAGAGGAAUAUGA
.((...(((........)))...)).......(((((...(((..((((..(((((........)))))..))))..)))...))))).((((...))))............ (-28.47 = -28.47 +  -0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:46:16 2006