Locus 7332

Sequence ID	X_DroMel_CAF1
Location	18,291,675 – 18,291,777
Length	102
Max. P	0.720769

overview

Window 6

Location	18,291,675 – 18,291,777
Length	102
Sequences	4
Columns	107
Reading direction	forward
Mean pairwise identity	86.26
Mean single sequence MFE	-31.34
Consensus MFE	-21.08
Energy contribution	-21.57
Covariance contribution	0.50
Combinations/Pair	1.14
Mean z-score	-1.95
Structure conservation index	0.67
SVM decision value	0.40
SVM RNA-class probability	0.720769
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18291675 102 + 22224390
UGUGUGCCGCA---UCCUGGAGGCCAAUGGUGGCUUUAGUGGCAA--GUUACCAUUUGGAGAAACGAUCCGCCUAAUGGAACGGAUUCACACCAAUAAAUAAGCACC
.((((((((..---(((...((((.(((((((((((.......))--))))))))).(((.......)))))))...))).)))...)))))............... ( -32.40)
>DroSec_CAF1 4919 101 + 1
UGUGUGCCGCA---UCCAGAAGGCCAAAAGUGGCUUUAGUGGCA---GUUACCAUUUGGAGAAACGAUCGGCCUAAUGGAACGGAUUCACACCAAUAAAUAAGCACC
.((((((((..---((((..(((((....((..(((((((((..---....))).))))))..))....)))))..)))).)))...)))))............... ( -32.90)
>DroSim_CAF1 3569 101 + 1
UGUGUGCCGCA---UCCAUGAGGCCAAAGGUGGCUUUAGUGGCA---GUUACCAUUUGGAGAAACGAUCGGCCUAAUGGAACGGAUUCACACCAAUAAAUGAGCACC
.((((((((..---(((((.(((((...(((((((........)---))))))..(((......)))..))))).))))).)))...)))))............... ( -33.70)
>DroYak_CAF1 5026 107 + 1
UGUGUGCAAUGUGUUCCUGGAGGUCAAAGGUGGCGUUGGUAACGAUGGUAAACAUUUGGAGAAACGAUCGGCCUAAUGGAACGGAUUCAGAACAAUAAAUAAGCACU
...(((((((.((((((...(((((.....((.(((((....))))).)).....(((......)))..)))))...)))))).)))...............)))). ( -26.36)
>consensus
UGUGUGCCGCA___UCCAGGAGGCCAAAGGUGGCUUUAGUGGCA___GUUACCAUUUGGAGAAACGAUCGGCCUAAUGGAACGGAUUCACACCAAUAAAUAAGCACC
.(((((((((.........(((((((....))))))).)))))....(((.(((((.((.((.....))..)).))))))))....................)))). (-21.08 = -21.57 +   0.50)

alignment

secondary structure

dotplot

Window 7

Location	18,291,675 – 18,291,777
Length	102
Sequences	4
Columns	107
Reading direction	reverse
Mean pairwise identity	86.26
Mean single sequence MFE	-28.47
Consensus MFE	-18.76
Energy contribution	-20.45
Covariance contribution	1.69
Combinations/Pair	1.09
Mean z-score	-1.75
Structure conservation index	0.66
SVM decision value	0.14
SVM RNA-class probability	0.600773
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18291675 102 - 22224390
GGUGCUUAUUUAUUGGUGUGAAUCCGUUCCAUUAGGCGGAUCGUUUCUCCAAAUGGUAAC--UUGCCACUAAAGCCACCAUUGGCCUCCAGGA---UGCGGCACACA
...............(((((...(((((((...(((((((.......))).((((((..(--((.......)))..)))))).))))...)))---.))))))))). ( -29.80)
>DroSec_CAF1 4919 101 - 1
GGUGCUUAUUUAUUGGUGUGAAUCCGUUCCAUUAGGCCGAUCGUUUCUCCAAAUGGUAAC---UGCCACUAAAGCCACUUUUGGCCUUCUGGA---UGCGGCACACA
...............(((((...((((((((..(((((((..((..((.....((((...---.))))....))..))..)))))))..))))---.))))))))). ( -33.00)
>DroSim_CAF1 3569 101 - 1
GGUGCUCAUUUAUUGGUGUGAAUCCGUUCCAUUAGGCCGAUCGUUUCUCCAAAUGGUAAC---UGCCACUAAAGCCACCUUUGGCCUCAUGGA---UGCGGCACACA
...............(((((...(((((((((.(((((((..((..((.....((((...---.))))....))..))..))))))).)))))---.))))))))). ( -33.90)
>DroYak_CAF1 5026 107 - 1
AGUGCUUAUUUAUUGUUCUGAAUCCGUUCCAUUAGGCCGAUCGUUUCUCCAAAUGUUUACCAUCGUUACCAACGCCACCUUUGACCUCCAGGAACACAUUGCACACA
.((((..(((((......)))))..(((((....(((((((.((..(.......)...)).))))........))).....((.....))))))).....))))... ( -17.20)
>consensus
GGUGCUUAUUUAUUGGUGUGAAUCCGUUCCAUUAGGCCGAUCGUUUCUCCAAAUGGUAAC___UGCCACUAAAGCCACCUUUGGCCUCCAGGA___UGCGGCACACA
.((((..((((((....)))))).(((((((..(((((((..((..((.....(((((.....)))))....))..))..)))))))..))))....)))))))... (-18.76 = -20.45 +   1.69)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:36:18 2006