Locus 6091

Sequence ID	3L_DroMel_CAF1
Location	16,174,775 – 16,174,988
Length	213
Max. P	0.991892

overview

Window 4

Location	16,174,775 – 16,174,868
Length	93
Sequences	4
Columns	93
Reading direction	reverse
Mean pairwise identity	93.73
Mean single sequence MFE	-25.80
Consensus MFE	-23.74
Energy contribution	-23.73
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-1.41
Structure conservation index	0.92
SVM decision value	0.14
SVM RNA-class probability	0.604086
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16174775 93 - 23771897
UCAGACAUCGCAAUCGACAUUCACAUCAACGACAACGGCGAUGUUGUCUGUUUGUCGUCUGGAAAGUUAGGGGACAAAGUUGUCGCUGUCACA
...((((.((((((.((((...(((((..((....))..)))))))))..((((((.(((((....))))).)))))))))).)).))))... ( -28.60)
>DroSec_CAF1 32415 83 - 1
UCAGACAUCGCAAUCGACAUUCACAUCAACGACAACGGCGAUGUUGUCUGUUUGUCGUCUG----------GGACAAAGUUGUCGCUGUCACU
...((((.((((((.((((...(((((..((....))..)))))))))..((((((.....----------.)))))))))).)).))))... ( -24.00)
>DroSim_CAF1 35024 93 - 1
UCAGACAUCGCAAUCGACAUUCACAUCAACGACAACGGCGAUGUUGUCUGUUUGUCGUCUGGAAAGUUAUGGGACAAAGUUGUCGCUGUCACU
((((((..((.(((.((((...(((((..((....))..))))))))).)))))..))))))..(((.((((((((....)))).)))).))) ( -25.30)
>DroEre_CAF1 32737 93 - 1
UCAGACAUCGCAAUCGACAUUCACAUCAACGACAACGGCGAUGUUGUCUGUUUGUCGUCUGGAAAGUUAUGGGACAAAGUUGUCGCUGUCACU
((((((..((.(((.((((...(((((..((....))..))))))))).)))))..))))))..(((.((((((((....)))).)))).))) ( -25.30)
>consensus
UCAGACAUCGCAAUCGACAUUCACAUCAACGACAACGGCGAUGUUGUCUGUUUGUCGUCUGGAAAGUUAUGGGACAAAGUUGUCGCUGUCACU
...((((.((((((.((((..((.......(((((((....)))))))))..))))((((...........))))...)))).)).))))... (-23.74 = -23.73 +  -0.00)

alignment

secondary structure

dotplot

Window 5

Location	16,174,812 – 16,174,908
Length	96
Sequences	4
Columns	96
Reading direction	forward
Mean pairwise identity	98.44
Mean single sequence MFE	-33.35
Consensus MFE	-33.08
Energy contribution	-33.08
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-2.33
Structure conservation index	0.99
SVM decision value	1.18
SVM RNA-class probability	0.926847
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16174812 96 + 23771897
GACAAACAGACAACAUCGCCGUUGUCGUUGAUGUGAAUGUCGAUUGCGAUGUCUGAGUCUGGGUCCGCUCUCACCUAUAGCUAUAUGGGUACAUGG
(((...(((((.(((((((.((((.((((......)))).)))).)))))))....))))).))).......(((((((....)))))))...... ( -33.00)
>DroSec_CAF1 32442 96 + 1
GACAAACAGACAACAUCGCCGUUGUCGUUGAUGUGAAUGUCGAUUGCGAUGUCUGAGUCUGGGUCCGCUCUUACCUAUAGCUAUAUGGGUACAUGG
(((...(((((.(((((((.((((.((((......)))).)))).)))))))....))))).)))......((((((((....))))))))..... ( -34.00)
>DroSim_CAF1 35061 96 + 1
GACAAACAGACAACAUCGCCGUUGUCGUUGAUGUGAAUGUCGAUUGCGAUGUCUGAGUCUGGGUCCGCUCUCACCUAUAGCUAUAUGGGUACAUGG
(((...(((((.(((((((.((((.((((......)))).)))).)))))))....))))).))).......(((((((....)))))))...... ( -33.00)
>DroEre_CAF1 32774 96 + 1
GACAAACAGACAACAUCGCCGUUGUCGUUGAUGUGAAUGUCGAUUGCGAUGUCUGAGUCUGGGUCUGCGCUCACCUAUAGCUAUAUGGGUACAUGG
(((...(((((.(((((((.((((.((((......)))).)))).)))))))....))))).))).......(((((((....)))))))...... ( -33.40)
>consensus
GACAAACAGACAACAUCGCCGUUGUCGUUGAUGUGAAUGUCGAUUGCGAUGUCUGAGUCUGGGUCCGCUCUCACCUAUAGCUAUAUGGGUACAUGG
(((...(((((.(((((((.((((.((((......)))).)))).)))))))....))))).))).......(((((((....)))))))...... (-33.08 = -33.08 +  -0.00)

alignment

secondary structure

dotplot

Window 6

Location	16,174,833 – 16,174,948
Length	115
Sequences	4
Columns	115
Reading direction	forward
Mean pairwise identity	94.35
Mean single sequence MFE	-44.28
Consensus MFE	-42.11
Energy contribution	-41.80
Covariance contribution	-0.31
Combinations/Pair	1.08
Mean z-score	-2.62
Structure conservation index	0.95
SVM decision value	2.29
SVM RNA-class probability	0.991892
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16174833 115 + 23771897
UUGUCGUUGAUGUGAAUGUCGAUUGCGAUGUCUGAGUCUGGGUCCGCUCUCACCUAUAGCUAUAUGGGUACAUGGCCACAGACCUGGCCGUAGCAUCGACUUGGACUUGGUUGGU
((((.((((((......)))))).))))...(..((((..((((.(((...(((((((....)))))))..(((((((......))))))))))...))))..))))..)..... ( -43.10)
>DroSec_CAF1 32463 115 + 1
UUGUCGUUGAUGUGAAUGUCGAUUGCGAUGUCUGAGUCUGGGUCCGCUCUUACCUAUAGCUAUAUGGGUACAUGGCCACAGACCUGGCCGUAGCAUCGACUUGGACUUGGUCGGU
((((.((((((......)))))).))))((.(..((((..((((.(((..((((((((....)))))))).(((((((......))))))))))...))))..))))..).)).. ( -46.10)
>DroSim_CAF1 35082 115 + 1
UUGUCGUUGAUGUGAAUGUCGAUUGCGAUGUCUGAGUCUGGGUCCGCUCUCACCUAUAGCUAUAUGGGUACAUGGCCACAGACCUGGCCGUAGCAUCGACUUGGACUUGGUCGGU
((((.((((((......)))))).))))((.(..((((..((((.(((...(((((((....)))))))..(((((((......))))))))))...))))..))))..).)).. ( -45.10)
>DroEre_CAF1 32795 115 + 1
UUGUCGUUGAUGUGAAUGUCGAUUGCGAUGUCUGAGUCUGGGUCUGCGCUCACCUAUAGCUAUAUGGGUACAUGGCUAUAGCCCUGGCCAUAGCCUCGACUUGGACCUGGUCUCC
((((.((((((......)))))).)))).....(((.(..((((((.(.(((((((((....)))))))....((((((.((....)).))))))..))).))))))..).))). ( -42.80)
>consensus
UUGUCGUUGAUGUGAAUGUCGAUUGCGAUGUCUGAGUCUGGGUCCGCUCUCACCUAUAGCUAUAUGGGUACAUGGCCACAGACCUGGCCGUAGCAUCGACUUGGACUUGGUCGGU
((((.((((((......)))))).)))).(.(((((((..((((.((....(((((((....)))))))..(((((((......))))))).))...))))..))))))).)... (-42.11 = -41.80 +  -0.31)

alignment

secondary structure

dotplot

Window 7

Location	16,174,868 – 16,174,988
Length	120
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	93.75
Mean single sequence MFE	-48.30
Consensus MFE	-44.51
Energy contribution	-44.45
Covariance contribution	-0.06
Combinations/Pair	1.08
Mean z-score	-2.09
Structure conservation index	0.92
SVM decision value	1.47
SVM RNA-class probability	0.957147
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16174868 120 + 23771897
GUCUGGGUCCGCUCUCACCUAUAGCUAUAUGGGUACAUGGCCACAGACCUGGCCGUAGCAUCGACUUGGACUUGGUUGGUGGUGCCGGGUUCCUGUUCUGGUUCUGGUUGCCAAGCUCGU
(((..((((.(((...(((((((....)))))))..(((((((......))))))))))...))))..)))..(.(((((...((((((..((......)).)))))).))))).).... ( -47.50)
>DroSec_CAF1 32498 120 + 1
GUCUGGGUCCGCUCUUACCUAUAGCUAUAUGGGUACAUGGCCACAGACCUGGCCGUAGCAUCGACUUGGACUUGGUCGGUGGUGCCGGGUUCCUGUUCUGGUUCUGGUUGCCAAGCUCGU
(((..((((.(((..((((((((....)))))))).(((((((......))))))))))...))))..)))(((((.(.(((.((((((.......)))))).))).).)))))...... ( -46.80)
>DroSim_CAF1 35117 120 + 1
GUCUGGGUCCGCUCUCACCUAUAGCUAUAUGGGUACAUGGCCACAGACCUGGCCGUAGCAUCGACUUGGACUUGGUCGGUGGUGCCGGGUUCCUGUUCUGGUUCUGGUUGCCAAGCUCGU
(((..((((.(((...(((((((....)))))))..(((((((......))))))))))...))))..)))(((((.(.(((.((((((.......)))))).))).).)))))...... ( -45.80)
>DroEre_CAF1 32830 119 + 1
GUCUGGGUCUGCGCUCACCUAUAGCUAUAUGGGUACAUGGCUAUAGCCCUGGCCAUAGCCUCGACUUGGACCUGGUCUCCGGUGCCGGGUUCCUCUUCUGGUUCUGGUUGCCA-GCUCGU
(((..((((.......(((((((....)))))))....((((((.((....)).))))))..))))..)))(((((..((((.((((((.......)))))).))))..))))-)..... ( -53.10)
>consensus
GUCUGGGUCCGCUCUCACCUAUAGCUAUAUGGGUACAUGGCCACAGACCUGGCCGUAGCAUCGACUUGGACUUGGUCGGUGGUGCCGGGUUCCUGUUCUGGUUCUGGUUGCCAAGCUCGU
(((..((((.((....(((((((....)))))))..(((((((......))))))).))...))))..)))(((((.(.(((.((((((.......)))))).))).).)))))...... (-44.51 = -44.45 +  -0.06)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:09:49 2006