Locus 7086

Sequence ID	2L_DroMel_CAF1
Location	19,815,036 – 19,815,155
Length	119
Max. P	0.999626

overview

Window 8

Location	19,815,036 – 19,815,155
Length	119
Sequences	5
Columns	119
Reading direction	forward
Mean pairwise identity	97.65
Mean single sequence MFE	-32.46
Consensus MFE	-30.50
Energy contribution	-30.66
Covariance contribution	0.16
Combinations/Pair	1.03
Mean z-score	-2.21
Structure conservation index	0.94
SVM decision value	3.15
SVM RNA-class probability	0.998585
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19815036 119 + 22407834
UUUUAUAGUUAUUGCCCCGAAAAUUCCCUAGAUGGUUUCGUCCAUUUUCUAUGGUCUUUCGGUUUUAUUUUGUUUGAAUGAAUGUGCACGCCCGUGCCAUGGAAAUUGGGGCUCUAUUG
....((((.....(((((((..........(((((......)))))(((((((((....(((.(((((((.....))))))).((....))))).))))))))).))))))).)))).. ( -33.00)
>DroSec_CAF1 81611 119 + 1
UUUUAUAGUUAUUGCCCCGAAAAUUCCCUAGAUGGUUUCGUCCAUUUUCUAUGGUCUUUUGGUUUUAUUUCGUUUGAAUGAAUGUGCAGGCCCGUGCCAUGGAAAUUGGGGCUCUAUUG
....((((.....(((((((..........(((((......)))))(((((((((.....(((((((((((((....))))).))).)))))...))))))))).))))))).)))).. ( -33.80)
>DroSim_CAF1 83644 119 + 1
UUUUAUAGUUAUUGCCCCGAAAAUUCCCUAGAUGGUUUCGUCCAUUUUCUAUGGUCUUUUGGUUUUAUUUCGUUUGAAUGAAUGUGCAGGCCCGUGCCAUGGAAAUUGGGGCUCUAUUG
....((((.....(((((((..........(((((......)))))(((((((((.....(((((((((((((....))))).))).)))))...))))))))).))))))).)))).. ( -33.80)
>DroEre_CAF1 84109 119 + 1
UUUUAUAGUUAUUGCCCCGAAAAUUCCCUAGAUGGUUUCGUCCAUUUUCUAUGGUGUUUUGGUUUUAUUUUGUUUGAAUGAAUGUGCAGGCCCGUGCCAUGGAAAUUGGAGCUCUAUUG
....((((.....((..(((((..((....))...)))))((((.(((((((((..(...((((((((((.....))))))).......))).)..))))))))).)))))).)))).. ( -27.81)
>DroYak_CAF1 91437 119 + 1
UUUUAUAGUUAUUGCCCCGAAAAUUCCCUAGAUGGUUUCGACCAUUUUCUAUGGUGUUUUGGUUUUAUUUUGUUUGAAUGAAUGUGCAGGCCCGUGCCAUGGAAAUUGGGGCUCUAUUG
....((((.....(((((((..........((((((....))))))((((((((..(...((((((((((.....))))))).......))).)..)))))))).))))))).)))).. ( -33.91)
>consensus
UUUUAUAGUUAUUGCCCCGAAAAUUCCCUAGAUGGUUUCGUCCAUUUUCUAUGGUCUUUUGGUUUUAUUUUGUUUGAAUGAAUGUGCAGGCCCGUGCCAUGGAAAUUGGGGCUCUAUUG
....((((.....(((((((..........(((((......)))))(((((((((.....(((((((((((((....))))).))).)))))...))))))))).))))))).)))).. (-30.50 = -30.66 +   0.16)

alignment

secondary structure

dotplot

Window 9

Location	19,815,036 – 19,815,155
Length	119
Sequences	5
Columns	119
Reading direction	reverse
Mean pairwise identity	97.65
Mean single sequence MFE	-25.74
Consensus MFE	-23.98
Energy contribution	-23.82
Covariance contribution	-0.16
Combinations/Pair	1.04
Mean z-score	-2.65
Structure conservation index	0.93
SVM decision value	3.80
SVM RNA-class probability	0.999626
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19815036 119 - 22407834
CAAUAGAGCCCCAAUUUCCAUGGCACGGGCGUGCACAUUCAUUCAAACAAAAUAAAACCGAAAGACCAUAGAAAAUGGACGAAACCAUCUAGGGAAUUUUCGGGGCAAUAACUAUAAAA
.......(((((((((((((((((((....)))).)))...(((..............(....).((((.....))))..)))........)))))))...)))))............. ( -29.80)
>DroSec_CAF1 81611 119 - 1
CAAUAGAGCCCCAAUUUCCAUGGCACGGGCCUGCACAUUCAUUCAAACGAAAUAAAACCAAAAGACCAUAGAAAAUGGACGAAACCAUCUAGGGAAUUUUCGGGGCAAUAACUAUAAAA
.......((((((((((((..(((....)))......(((.(((....)))..............((((.....))))..)))........)))))))...)))))............. ( -25.60)
>DroSim_CAF1 83644 119 - 1
CAAUAGAGCCCCAAUUUCCAUGGCACGGGCCUGCACAUUCAUUCAAACGAAAUAAAACCAAAAGACCAUAGAAAAUGGACGAAACCAUCUAGGGAAUUUUCGGGGCAAUAACUAUAAAA
.......((((((((((((..(((....)))......(((.(((....)))..............((((.....))))..)))........)))))))...)))))............. ( -25.60)
>DroEre_CAF1 84109 119 - 1
CAAUAGAGCUCCAAUUUCCAUGGCACGGGCCUGCACAUUCAUUCAAACAAAAUAAAACCAAAACACCAUAGAAAAUGGACGAAACCAUCUAGGGAAUUUUCGGGGCAAUAACUAUAAAA
.......((((((((((((..(((....))).....................................((((...(((......))))))))))))))...)))))............. ( -21.80)
>DroYak_CAF1 91437 119 - 1
CAAUAGAGCCCCAAUUUCCAUGGCACGGGCCUGCACAUUCAUUCAAACAAAAUAAAACCAAAACACCAUAGAAAAUGGUCGAAACCAUCUAGGGAAUUUUCGGGGCAAUAACUAUAAAA
.......((((((((((((..(((....))).....................................((((...((((....)))))))))))))))...)))))............. ( -25.90)
>consensus
CAAUAGAGCCCCAAUUUCCAUGGCACGGGCCUGCACAUUCAUUCAAACAAAAUAAAACCAAAAGACCAUAGAAAAUGGACGAAACCAUCUAGGGAAUUUUCGGGGCAAUAACUAUAAAA
.......((((((((((((((((((......))).)))..............................((((...(((......))))))))))))))...)))))............. (-23.98 = -23.82 +  -0.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:27:14 2006