Locus 2433

Sequence ID	3L_DroMel_CAF1
Location	6,873,363 – 6,873,514
Length	151
Max. P	0.928703

overview

Window 6

Location	6,873,363 – 6,873,474
Length	111
Sequences	4
Columns	111
Reading direction	reverse
Mean pairwise identity	94.34
Mean single sequence MFE	-34.84
Consensus MFE	-28.14
Energy contribution	-28.14
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-3.14
Structure conservation index	0.81
SVM decision value	0.97
SVM RNA-class probability	0.891879
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 6873363 111 - 23771897
UAUCUGUGUGUUUGUGUGUGUGUAGAUAUAUGUAUAUAGAUAAAAGUGUGUGUCCAUGUGGGGGUUGCCACAGCAACAGGAAAUCGGACGCAUGCGUAUUGGUAGUAACCC
((((((((((..(((((........)))))..))))))))))...((((((((((........(((((....)))))........)))))))))).....(((....))). ( -34.49)
>DroSec_CAF1 122055 104 - 1
---CUGUG----UGUGUGUGUGUAGAUAUAUGUAUAUAGAUAAAAGUGUGUGUCCAUGUGGGGGUUGCCACAGCAACAGGAAAUCGGACGCAUGCGUAUUGUUAGAAACCC
---(((((----((..(((((....)))))..)))))))......((((((((((........(((((....)))))........))))))))))................ ( -32.49)
>DroSim_CAF1 128191 107 - 1
UAUCUGUG----UGUGUGUGUGUAGAUAUAUGUAUAUAGAUAAAAGUGUGUGUCCAUGUGGGGGUUGCCACAGCAACAGGAAAUCGGACGCAUGCGUAUUGGUAGUAACCC
((((((((----((..(((((....)))))..))))))))))...((((((((((........(((((....)))))........)))))))))).....(((....))). ( -37.69)
>DroEre_CAF1 138974 105 - 1
UAUC--UG----UGUGUGUGUGUAGAUAUAUGUAUAUAGAUAAAAGUGUGUGUCCAUGUGGGGGUUGCCACAGCAACAGGAAAUCGGACGCAUGCGUAUUGGUAGAAAUCC
((((--((----((((..((((....))))..))))))))))...((((((((((........(((((....)))))........))))))))))................ ( -34.69)
>consensus
UAUCUGUG____UGUGUGUGUGUAGAUAUAUGUAUAUAGAUAAAAGUGUGUGUCCAUGUGGGGGUUGCCACAGCAACAGGAAAUCGGACGCAUGCGUAUUGGUAGAAACCC
............((((((..(((....)))..))))))((((...((((((((((........(((((....)))))........)))))))))).))))........... (-28.14 = -28.14 +   0.00)

alignment

secondary structure

dotplot

Window 7

Location	6,873,400 – 6,873,514
Length	114
Sequences	3
Columns	114
Reading direction	forward
Mean pairwise identity	95.27
Mean single sequence MFE	-21.10
Consensus MFE	-19.08
Energy contribution	-19.08
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-2.59
Structure conservation index	0.90
SVM decision value	1.19
SVM RNA-class probability	0.928703
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 6873400 114 + 23771897
GCUGUGGCAACCCCCACAUGGACACACACUUUUAUCUAUAUACAUAUAUCUACACACACACAAACACACAGAUAUAUGUGUCGAGAGCACCCAACGCAAUAUUUGAAUAUUCAC
(((((((......)))))................(((..((((((((((((..................))))))))))))..))).........))................. ( -20.17)
>DroSim_CAF1 128228 110 + 1
GCUGUGGCAACCCCCACAUGGACACACACUUUUAUCUAUAUACAUAUAUCUACACACACACA----CACAGAUAUAUGUGUCGAGAGCACCCAACGCAAUAUUUGAAUAUUCAC
(((((((......)))))................(((..((((((((((((...........----...))))))))))))..))).........))................. ( -20.44)
>DroEre_CAF1 139011 108 + 1
GCUGUGGCAACCCCCACAUGGACACACACUUUUAUCUAUAUACAUAUAUCUACACACACACA----CA--GAUAUAUGUGUCGAGAGCAGGCAACGCAAUAUUUGAAUAUUCAC
..(((((......)))))((((............(((..((((((((((((...........----.)--)))))))))))..)))((.(....)))............)))). ( -22.70)
>consensus
GCUGUGGCAACCCCCACAUGGACACACACUUUUAUCUAUAUACAUAUAUCUACACACACACA____CACAGAUAUAUGUGUCGAGAGCACCCAACGCAAUAUUUGAAUAUUCAC
(((((((......)))))................(((..(((((((((((....................)))))))))))..))).........))................. (-19.08 = -19.08 +  -0.00)

alignment

secondary structure

dotplot

Window 8

Location	6,873,400 – 6,873,514
Length	114
Sequences	3
Columns	114
Reading direction	reverse
Mean pairwise identity	95.27
Mean single sequence MFE	-34.90
Consensus MFE	-25.83
Energy contribution	-27.17
Covariance contribution	1.33
Combinations/Pair	1.00
Mean z-score	-3.06
Structure conservation index	0.74
SVM decision value	0.06
SVM RNA-class probability	0.561977
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 6873400 114 - 23771897
GUGAAUAUUCAAAUAUUGCGUUGGGUGCUCUCGACACAUAUAUCUGUGUGUUUGUGUGUGUGUAGAUAUAUGUAUAUAGAUAAAAGUGUGUGUCCAUGUGGGGGUUGCCACAGC
((.(((((....)))))))(((((((((((((((((((((((((((((((..(((((........)))))..)))))))))....))))))))).....))))).)))).)))) ( -33.30)
>DroSim_CAF1 128228 110 - 1
GUGAAUAUUCAAAUAUUGCGUUGGGUGCUCUCGACACAUAUAUCUGUG----UGUGUGUGUGUAGAUAUAUGUAUAUAGAUAAAAGUGUGUGUCCAUGUGGGGGUUGCCACAGC
((.(((((....)))))))(((((((((((((((((((((((((((((----((..(((((....)))))..)))))))))....))))))))).....))))).)))).)))) ( -36.50)
>DroEre_CAF1 139011 108 - 1
GUGAAUAUUCAAAUAUUGCGUUGCCUGCUCUCGACACAUAUAUC--UG----UGUGUGUGUGUAGAUAUAUGUAUAUAGAUAAAAGUGUGUGUCCAUGUGGGGGUUGCCACAGC
((((((((....)))))(((.(.((..(....((((((((((((--((----((((..((((....))))..)))))))))....)))))))))...)..)).).))))))... ( -34.90)
>consensus
GUGAAUAUUCAAAUAUUGCGUUGGGUGCUCUCGACACAUAUAUCUGUG____UGUGUGUGUGUAGAUAUAUGUAUAUAGAUAAAAGUGUGUGUCCAUGUGGGGGUUGCCACAGC
(.((.(((((((........))))))).)).)((((((((((((((((....((..(((((....)))))..)))))))))....)))))))))..(((((......))))).. (-25.83 = -27.17 +   1.33)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:32:15 2006