Locus 6865

Sequence ID	3L_DroMel_CAF1
Location	18,441,678 – 18,441,774
Length	96
Max. P	0.986888

overview

Window 4

Location	18,441,678 – 18,441,774
Length	96
Sequences	6
Columns	111
Reading direction	forward
Mean pairwise identity	72.17
Mean single sequence MFE	-37.60
Consensus MFE	-17.50
Energy contribution	-17.83
Covariance contribution	0.34
Combinations/Pair	1.43
Mean z-score	-1.85
Structure conservation index	0.47
SVM decision value	0.62
SVM RNA-class probability	0.803591
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 18441678 96 + 23771897
-----AGUGGGUGGUGCUGAGUGGAUGGAGCCGAGUUGGUGGAUGGAUGGUGCA---------GGUCAGUGGUGCCCCGUUUACCUGU-GGCAAAGAGGACGCCUGCAAAU
-----.(..((((((.(.....).))...((((....(((((((((..((..(.---------........)..)))))))))))..)-)))........))))..).... ( -33.00)
>DroSec_CAF1 82916 92 + 1
-----AGUGGGUGGUGCUGAGUGGAUGGUGCCGAGUUGCGG----GGUGGUGCA---------GGUCAGUGGUGCCCCGGUUACCUGU-GGCAAAGGGGACGACCGCAAAU
-----.((((.(((..((........))..))).....(((----((((.(((.---------.....))).)))))))((..(((..-.....)))..))..)))).... ( -33.60)
>DroSim_CAF1 75744 92 + 1
-----AGUGGGUGGUGCUGAGUGGAUGGUGCCGAGUUGCGG----GGUGGUGCA---------GGUCAGUGGUGCCCCGGUUACCUGU-GGCAAAGGGGACGACCGCAAAU
-----.((((.(((..((........))..))).....(((----((((.(((.---------.....))).)))))))((..(((..-.....)))..))..)))).... ( -33.60)
>DroEre_CAF1 80784 88 + 1
-----AGUGGGUGGUGCUGGCUGGGUGGUGCCGAAU----G----GGUGGUGCA---------GGUCAGUGGUGCCCCGUUUCUCUGU-GGCGAGGGGGGCAGCCGCAAAU
-----.....((((((((((((..(((.((((....----.----)))).))).---------)))))))..((((((...((((...-...))))))))))))))).... ( -37.60)
>DroYak_CAF1 83042 93 + 1
GGUUGAGUGGGUGGUGCUGACUGGCUGGUGCCGAGU----G----GGUGGUGCA---------GGUCAGUGGUGCCCCGUUCACCUGC-GGCGAAGGGGAUGGCCGCAAAU
(((.(((((((..(..((.(((((((.(..(((...----.----..)))..).---------)))))))))..)))))))))))(((-(((.(......).))))))... ( -42.90)
>DroAna_CAF1 68664 105 + 1
CACCACCCUGAUGCUGCCACCUGGCUGGUGCUAAGUGGCGU----GGCGCUGCCACAGAGAGGGAGUGGUGGUGCAAAGUUUACCUGGUGGCAAG--CAAAAGCCGCAAAU
(((((((((....(((((((.((((....)))).)))))((----(((...)))))))...))).))))))................(((((...--.....))))).... ( -44.90)
>consensus
_____AGUGGGUGGUGCUGACUGGAUGGUGCCGAGUUGCGG____GGUGGUGCA_________GGUCAGUGGUGCCCCGUUUACCUGU_GGCAAAGGGGACGGCCGCAAAU
...........(((((((........)))))))...................................(((((.((((.(((.((....)).)))))))...))))).... (-17.50 = -17.83 +   0.34)

alignment

secondary structure

dotplot

Window 5

Location	18,441,678 – 18,441,774
Length	96
Sequences	6
Columns	111
Reading direction	reverse
Mean pairwise identity	72.17
Mean single sequence MFE	-27.60
Consensus MFE	-11.48
Energy contribution	-12.07
Covariance contribution	0.59
Combinations/Pair	1.27
Mean z-score	-2.51
Structure conservation index	0.42
SVM decision value	2.06
SVM RNA-class probability	0.986888
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 18441678 96 - 23771897
AUUUGCAGGCGUCCUCUUUGCC-ACAGGUAAACGGGGCACCACUGACC---------UGCACCAUCCAUCCACCAACUCGGCUCCAUCCACUCAGCACCACCCACU-----
...((((((((((((.((((((-...)))))).)))))......).))---------))))...................(((..........)))..........----- ( -19.80)
>DroSec_CAF1 82916 92 - 1
AUUUGCGGUCGUCCCCUUUGCC-ACAGGUAACCGGGGCACCACUGACC---------UGCACCACC----CCGCAACUCGGCACCAUCCACUCAGCACCACCCACU-----
...((((((.(((((..(((((-...)))))..)))))))).((((..---------(((......----..)))..)))).............))).........----- ( -25.40)
>DroSim_CAF1 75744 92 - 1
AUUUGCGGUCGUCCCCUUUGCC-ACAGGUAACCGGGGCACCACUGACC---------UGCACCACC----CCGCAACUCGGCACCAUCCACUCAGCACCACCCACU-----
...((((((.(((((..(((((-...)))))..)))))))).((((..---------(((......----..)))..)))).............))).........----- ( -25.40)
>DroEre_CAF1 80784 88 - 1
AUUUGCGGCUGCCCCCCUCGCC-ACAGAGAAACGGGGCACCACUGACC---------UGCACCACC----C----AUUCGGCACCACCCAGCCAGCACCACCCACU-----
...(((((.((((((.(((...-...)))....)))))))).......---------.........----.----....(((........))).))).........----- ( -24.70)
>DroYak_CAF1 83042 93 - 1
AUUUGCGGCCAUCCCCUUCGCC-GCAGGUGAACGGGGCACCACUGACC---------UGCACCACC----C----ACUCGGCACCAGCCAGUCAGCACCACCCACUCAACC
...((((((.(......).)))-)))((((...((....)).(((((.---------.((.....(----(----....)).....))..)))))))))............ ( -26.60)
>DroAna_CAF1 68664 105 - 1
AUUUGCGGCUUUUG--CUUGCCACCAGGUAAACUUUGCACCACCACUCCCUCUCUGUGGCAGCGCC----ACGCCACUUAGCACCAGCCAGGUGGCAGCAUCAGGGUGGUG
...(((((..((((--((((....))))))))..))))).((((((((.......(((((...)))----))(((((((.((....)).))))))).......)))))))) ( -43.70)
>consensus
AUUUGCGGCCGUCCCCUUUGCC_ACAGGUAAACGGGGCACCACUGACC_________UGCACCACC____CCGCAACUCGGCACCAUCCACUCAGCACCACCCACU_____
...(((....(((((..(((((....)))))..))))).........................................((......)).....))).............. (-11.48 = -12.07 +   0.59)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:31:41 2006