Locus 1243

Sequence ID	3L_DroMel_CAF1
Location	3,537,631 – 3,537,731
Length	100
Max. P	0.724969

overview

Window 8

Location	3,537,631 – 3,537,731
Length	100
Sequences	5
Columns	100
Reading direction	forward
Mean pairwise identity	92.50
Mean single sequence MFE	-29.22
Consensus MFE	-23.52
Energy contribution	-23.76
Covariance contribution	0.24
Combinations/Pair	1.08
Mean z-score	-1.42
Structure conservation index	0.80
SVM decision value	0.09
SVM RNA-class probability	0.581025
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3537631 100 + 23771897
UUUGUGUGUUUUGCGAUCUAGUCAGGGGCGUAGUCAAAGAUACGGCGGUGGCAAAUGUAAAAUAUAGUUUGAGUGCCACAGGUAAGCCCCUGAAUAUCUU
..............(((....((((((((...(((........))).((((((....((((......))))..))))))......))))))))..))).. ( -31.00)
>DroSec_CAF1 67796 100 + 1
UUUGUGUGUUUUGCGAUCUAGUCAGGGGCGUAGUCAAAGAUACGGCGGUGGCAAAUGUAAAAUAAAGUUUGAGUGCCACAGGUAAGCCCCUGAAUAUCUG
..............(((....((((((((...(((........))).((((((....((((......))))..))))))......))))))))..))).. ( -31.00)
>DroSim_CAF1 68927 100 + 1
UUUGUGUGUUUUGCGAUCUAGUCAGGGGCGUAGUCAAAGAUACGGCGGUGGCAAAUGUAAAAUAUAGUUUGAGUGCCACAGGUAAGCCGCUGAAUAUCUG
..............(((....((((.(((...(((........))).((((((....((((......))))..))))))......))).))))..))).. ( -26.10)
>DroEre_CAF1 85830 100 + 1
UUUGUGUGUUUUGCAAGCUAGUCAGGGGCGUAGUCAAAGAAACAGCGGCGCCAAAUGUAAAAUAUAGUUUGAUUGCCACACGUAAGCCCCUGACCAUCUG
((((((.....))))))...(((((((((((.((.......)).))((((.(((((..........)))))..))))........)))))))))...... ( -28.30)
>DroYak_CAF1 70801 100 + 1
UUUGUGUGCUUUGCCAGCUAGUCAGGGGCGUAGUCAAAGAAACGGCGGCGCCAAAUGUAAAAUAUAGUUUGAUUGCCACAGGUAGGCCCCUGAACAUCUG
...(((((((.....)))...((((((((.(((((........)))((((.(((((..........)))))..)))).....)).))))))))))))... ( -29.70)
>consensus
UUUGUGUGUUUUGCGAUCUAGUCAGGGGCGUAGUCAAAGAUACGGCGGUGGCAAAUGUAAAAUAUAGUUUGAGUGCCACAGGUAAGCCCCUGAAUAUCUG
.(((((.....))))).....((((((((...(((........)))((((.(((((..........)))))..))))........))))))))....... (-23.52 = -23.76 +   0.24)

alignment

secondary structure

dotplot

Window 9

Location	3,537,631 – 3,537,731
Length	100
Sequences	5
Columns	100
Reading direction	reverse
Mean pairwise identity	92.50
Mean single sequence MFE	-25.73
Consensus MFE	-18.51
Energy contribution	-19.03
Covariance contribution	0.52
Combinations/Pair	1.11
Mean z-score	-2.48
Structure conservation index	0.72
SVM decision value	0.41
SVM RNA-class probability	0.724969
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3537631 100 - 23771897
AAGAUAUUCAGGGGCUUACCUGUGGCACUCAAACUAUAUUUUACAUUUGCCACCGCCGUAUCUUUGACUACGCCCCUGACUAGAUCGCAAAACACACAAA
..(((..((((((((......((((((....................))))))....(((........)))))))))))....))).............. ( -25.95)
>DroSec_CAF1 67796 100 - 1
CAGAUAUUCAGGGGCUUACCUGUGGCACUCAAACUUUAUUUUACAUUUGCCACCGCCGUAUCUUUGACUACGCCCCUGACUAGAUCGCAAAACACACAAA
..(((..((((((((......((((((....................))))))....(((........)))))))))))....))).............. ( -25.95)
>DroSim_CAF1 68927 100 - 1
CAGAUAUUCAGCGGCUUACCUGUGGCACUCAAACUAUAUUUUACAUUUGCCACCGCCGUAUCUUUGACUACGCCCCUGACUAGAUCGCAAAACACACAAA
..(((..((((.(((......((((((....................))))))....(((........)))))).))))....))).............. ( -18.85)
>DroEre_CAF1 85830 100 - 1
CAGAUGGUCAGGGGCUUACGUGUGGCAAUCAAACUAUAUUUUACAUUUGGCGCCGCUGUUUCUUUGACUACGCCCCUGACUAGCUUGCAAAACACACAAA
(((.(((((((((((......(((((..(((((............))))).))))).(((.....)))...)))))))))))..)))............. ( -30.50)
>DroYak_CAF1 70801 100 - 1
CAGAUGUUCAGGGGCCUACCUGUGGCAAUCAAACUAUAUUUUACAUUUGGCGCCGCCGUUUCUUUGACUACGCCCCUGACUAGCUGGCAAAGCACACAAA
(((.((.((((((((......(((((..(((((............))))).))))).(((.....)))...)))))))).)).))).............. ( -27.40)
>consensus
CAGAUAUUCAGGGGCUUACCUGUGGCACUCAAACUAUAUUUUACAUUUGCCACCGCCGUAUCUUUGACUACGCCCCUGACUAGAUCGCAAAACACACAAA
....((.((((((((......((((((....................))))))....(((........))))))))))).)).................. (-18.51 = -19.03 +   0.52)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:02:56 2006