Locus 6094

Sequence ID	3L_DroMel_CAF1
Location	16,180,314 – 16,180,429
Length	115
Max. P	0.781860

overview

Window 2

Location	16,180,314 – 16,180,429
Length	115
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	91.70
Mean single sequence MFE	-30.41
Consensus MFE	-26.11
Energy contribution	-26.11
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-1.35
Structure conservation index	0.86
SVM decision value	-0.08
SVM RNA-class probability	0.500000
Prediction	OTHER

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16180314 115 + 23771897
-GGGGGGCGUAAAGAAGAGGGGACAGUGUCUGAGCAUCGCCCUGUGGGCAUAAAUAACCCCAAGAACUGCAACACGAACAACAAUAAUAUAUG----UAUGUUCAGAUGCUGCGGCAUUG
-.((((((....(((...(....)....)))..))...((((...))))........)))).....(((((.(((((((((((........))----).))))).).)).)))))..... ( -32.30)
>DroSec_CAF1 37723 109 + 1
-------CGAAAAGAAGAGGGGACAGUGUCUGAGCAUCGCCCUGUGGGCAUAAAUAACCCCAAGAACUGCAACACGAACAACAAUAAUAUAUG----UAUGUUCAGAUGCUGCGGCAUUG
-------................(((((((..((((((((((...))))..........................((((((((........))----).))))).))))))..))))))) ( -29.10)
>DroSim_CAF1 40581 116 + 1
AGGGGGUCGACAAGAAGAGGGGACAGUGUCUGAGCAUCGCCCUGUGGGCAUAAAUAACCCCAAAAACUGCAACACGAACAACAAUAAUAUAUG----UAUGUUCAGAUGCUGCGGCAUUG
..(((((.((((......(....)..))))........((((...)))).......))))).....(((((.(((((((((((........))----).))))).).)).)))))..... ( -31.10)
>DroEre_CAF1 38176 113 + 1
-------CAAAAAGAAGAGGAGACAGUGUCUGAGCAUCGCCCUGUGGGCAUAAAUAACCCCAAGAACUGCAGCACGAACAACAAUAAUAUAUGUAUGUAUGUUCAGAUGCUGCGGCAUUG
-------................(((((((..((((((((((...))))..............(((((((((((.................))).)))).)))).))))))..))))))) ( -29.13)
>consensus
_______CGAAAAGAAGAGGGGACAGUGUCUGAGCAUCGCCCUGUGGGCAUAAAUAACCCCAAGAACUGCAACACGAACAACAAUAAUAUAUG____UAUGUUCAGAUGCUGCGGCAUUG
.......................(((((((..((((((((((...))))..........................(((((...................))))).))))))..))))))) (-26.11 = -26.11 +  -0.00)

alignment

secondary structure

dotplot

Window 3

Location	16,180,314 – 16,180,429
Length	115
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	91.70
Mean single sequence MFE	-30.66
Consensus MFE	-25.72
Energy contribution	-25.54
Covariance contribution	-0.19
Combinations/Pair	1.04
Mean z-score	-1.75
Structure conservation index	0.84
SVM decision value	0.56
SVM RNA-class probability	0.781860
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16180314 115 - 23771897
CAAUGCCGCAGCAUCUGAACAUA----CAUAUAUUAUUGUUGUUCGUGUUGCAGUUCUUGGGGUUAUUUAUGCCCACAGGGCGAUGCUCAGACACUGUCCCCUCUUCUUUACGCCCCCC-
(((.((.(((((((..(((((.(----((........))))))))))))))).))..)))((((.......))))...(((((......(((..........)))......)))))...- ( -30.40)
>DroSec_CAF1 37723 109 - 1
CAAUGCCGCAGCAUCUGAACAUA----CAUAUAUUAUUGUUGUUCGUGUUGCAGUUCUUGGGGUUAUUUAUGCCCACAGGGCGAUGCUCAGACACUGUCCCCUCUUCUUUUCG-------
(((.((.(((((((..(((((.(----((........))))))))))))))).))..)))((((.......))))..((((.(((...........)))))))..........------- ( -28.20)
>DroSim_CAF1 40581 116 - 1
CAAUGCCGCAGCAUCUGAACAUA----CAUAUAUUAUUGUUGUUCGUGUUGCAGUUUUUGGGGUUAUUUAUGCCCACAGGGCGAUGCUCAGACACUGUCCCCUCUUCUUGUCGACCCCCU
.......(((((((..(((((.(----((........))))))))))))))).......((((((.....(((((...))))).......((((..............)))))))))).. ( -33.64)
>DroEre_CAF1 38176 113 - 1
CAAUGCCGCAGCAUCUGAACAUACAUACAUAUAUUAUUGUUGUUCGUGCUGCAGUUCUUGGGGUUAUUUAUGCCCACAGGGCGAUGCUCAGACACUGUCUCCUCUUCUUUUUG-------
....((((((((((..(((((.(((............))))))))))))))).....(((((((.......)))).))))))((.....((((...)))).....))......------- ( -30.40)
>consensus
CAAUGCCGCAGCAUCUGAACAUA____CAUAUAUUAUUGUUGUUCGUGUUGCAGUUCUUGGGGUUAUUUAUGCCCACAGGGCGAUGCUCAGACACUGUCCCCUCUUCUUUUCG_______
((.(((((((((((..(((((...................)))))))))))).....(((((((.......)))).))))))).)).................................. (-25.72 = -25.54 +  -0.19)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:09:55 2006