Locus 1541

Sequence ID	X_DroMel_CAF1
Location	4,451,521 – 4,451,632
Length	111
Max. P	0.992709

overview

Window 3

Location	4,451,521 – 4,451,632
Length	111
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	84.68
Mean single sequence MFE	-49.96
Consensus MFE	-33.72
Energy contribution	-35.40
Covariance contribution	1.68
Combinations/Pair	1.09
Mean z-score	-3.66
Structure conservation index	0.67
SVM decision value	2.35
SVM RNA-class probability	0.992709
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4451521 111 + 22224390
GGGGU---GGGUGUGCCGGUUGCUGGGCGUUCGGGCGGUAUUAUUCAUGGCGCCUAAACAGCUUUGGGCAAACACCUCCCAGUAAUGCCACCACCC------CCCCUCAAAAUGUCUAUA
((((.---(((((((.((.((((((((.(((..((((.(((.....))).))))..))).((.....))........)))))))))).)).)))))------)))).............. ( -46.10)
>DroSec_CAF1 52988 116 + 1
GGGGU---GGGUGUGCCGGUUGCUGGGCGUUUGGGCGGCAUUAUUCAUGGCGCCUA-ACAGCUUUGGGCAAACACCUCCCAGUAAUGCCACCACACCCCCCACCCCCCAGAAUGUCUAUA
(((((---(((((((..((((((((((.(.(((((((.(((.....))).))))))-)..((.....))......).)))))))..)))..)))))))...))))).............. ( -50.10)
>DroSim_CAF1 54326 116 + 1
GGGGU---GGGUGUGCCGGUUGCUGGGCGUUUGGGCGGCAUUAUUCAUGGCGCCUAAACAGCUUUGGGCAAACACCUCCCAGUAAUGCCACCACACA-CCCACCCCCCAGAAUGUCUAUA
(((((---(((((((..((((((((((.(((((((((.(((.....))).))))))))).((.....))........)))))))..)))....))))-)))))))).............. ( -58.90)
>DroEre_CAF1 54953 99 + 1
GGGGGAGGGGCUGUGUCGGUUGCUGGGCGAUCGGGCGGCAUUAUUCAUGGCGCCUAGACAGCUUUGGGC-----------AGUAAUGCCACC--------C--CCCCUAGAAUGUCUAUA
(((((.((((((((..(((((((...)))))))((((.(((.....))).))))...)))))....(((-----------(....)))).))--------)--)))))............ ( -47.20)
>DroYak_CAF1 53664 109 + 1
GGGGU---GGGUGUGUCGGUUGCUGGACGAUCGGGCGGCAUUAUUCAUGGCGCCUAAACAGCUUUGGGCAAACACCUCCCAGUAAUGCCACC--------CACCCCCUAGAAUGUCUAAA
(((((---(((((.((..((((((((......(((((.(((.....))).))))).....((.....)).........))))))))))))))--------)))))).(((.....))).. ( -47.50)
>consensus
GGGGU___GGGUGUGCCGGUUGCUGGGCGUUCGGGCGGCAUUAUUCAUGGCGCCUAAACAGCUUUGGGCAAACACCUCCCAGUAAUGCCACCAC_C____CACCCCCCAGAAUGUCUAUA
(((((....((((.((..(((((((((.(((.(((((.(((.....))).))))).))).((.....))........))))))))))))))).........))))).............. (-33.72 = -35.40 +   1.68)

alignment

secondary structure

dotplot

Window 4

Location	4,451,521 – 4,451,632
Length	111
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	84.68
Mean single sequence MFE	-44.12
Consensus MFE	-26.94
Energy contribution	-28.30
Covariance contribution	1.36
Combinations/Pair	1.10
Mean z-score	-2.36
Structure conservation index	0.61
SVM decision value	0.43
SVM RNA-class probability	0.733751
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4451521 111 - 22224390
UAUAGACAUUUUGAGGGG------GGGUGGUGGCAUUACUGGGAGGUGUUUGCCCAAAGCUGUUUAGGCGCCAUGAAUAAUACCGCCCGAACGCCCAGCAACCGGCACACCC---ACCCC
..............((((------(((((...((....(((((.(((....))).......(((..((((..((.....))..))))..))).)))))......)).)))))---.)))) ( -40.20)
>DroSec_CAF1 52988 116 - 1
UAUAGACAUUCUGGGGGGUGGGGGGUGUGGUGGCAUUACUGGGAGGUGUUUGCCCAAAGCUGU-UAGGCGCCAUGAAUAAUGCCGCCCAAACGCCCAGCAACCGGCACACCC---ACCCC
..(((.....))).((((((((((((((((((((((((.(.(..((((((((..((....)).-)))))))).).).))))))))))...)))))).((.....))...)))---))))) ( -52.00)
>DroSim_CAF1 54326 116 - 1
UAUAGACAUUCUGGGGGGUGGG-UGUGUGGUGGCAUUACUGGGAGGUGUUUGCCCAAAGCUGUUUAGGCGCCAUGAAUAAUGCCGCCCAAACGCCCAGCAACCGGCACACCC---ACCCC
..(((.....))).((((((((-(((((((((((((((.(.(..((((((((..((....))..)))))))).).).)))))))))).....((...)).....))))))))---))))) ( -53.00)
>DroEre_CAF1 54953 99 - 1
UAUAGACAUUCUAGGGG--G--------GGUGGCAUUACU-----------GCCCAAAGCUGUCUAGGCGCCAUGAAUAAUGCCGCCCGAUCGCCCAGCAACCGACACAGCCCCUCCCCC
..(((.....)))((((--(--------((.(((......-----------((.....))((((..((((.(((.....))).)))).....((...))....))))..)))))))))). ( -33.90)
>DroYak_CAF1 53664 109 - 1
UUUAGACAUUCUAGGGGGUG--------GGUGGCAUUACUGGGAGGUGUUUGCCCAAAGCUGUUUAGGCGCCAUGAAUAAUGCCGCCCGAUCGUCCAGCAACCGACACACCC---ACCCC
.((((.....))))((((((--------(((((((.((((....))))..))).....((((.(..((((.(((.....))).))))..).....))))........)))))---))))) ( -41.50)
>consensus
UAUAGACAUUCUGGGGGGUG____G_GUGGUGGCAUUACUGGGAGGUGUUUGCCCAAAGCUGUUUAGGCGCCAUGAAUAAUGCCGCCCGAACGCCCAGCAACCGGCACACCC___ACCCC
..(((.....)))((((...........((((((((((......((((((((..((....))..)))))))).....)))))))))).....(((........)))..........)))) (-26.94 = -28.30 +   1.36)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:12:55 2006