Locus 7590

Sequence ID	2L_DroMel_CAF1
Location	20,994,761 – 20,994,855
Length	94
Max. P	0.998329

overview

Window 2

Location	20,994,761 – 20,994,855
Length	94
Sequences	6
Columns	95
Reading direction	forward
Mean pairwise identity	95.90
Mean single sequence MFE	-25.87
Consensus MFE	-21.84
Energy contribution	-22.62
Covariance contribution	0.78
Combinations/Pair	1.05
Mean z-score	-2.36
Structure conservation index	0.84
SVM decision value	1.26
SVM RNA-class probability	0.937036
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20994761 94 + 22407834
CCACAAAAACCAGAGCUGGCAUAUUGCCGCUAUUGUCUUUUAUAGUUUCCUGGAACAUUUGCCGCUUUGGCU-UCCAUCUCGGGCCACAGCAGCA
.........((((....(((.....)))(((((........)))))...))))......(((.(((.(((((-(.......)))))).))).))) ( -26.80)
>DroSec_CAF1 43512 95 + 1
CCACAAAAACCAGAGCUGGCAUAUUGCCGCUAUUGUCUUUUAUAGUUUCCUGGAACAUUUGCCGCUUUGGCUUUCCAUCUCGGGCCACAGCAGCA
.........((((....(((.....)))(((((........)))))...))))......(((.(((.((((((........)))))).))).))) ( -27.10)
>DroSim_CAF1 43940 94 + 1
CCACAAAAACCAGAGCUGGCAUAUUGCCGCUAUUGUCUUUUAUAGUUUCCUGGAACAUUUGCCGCUUUGGCU-UCCAUCUCGGGCCACAGCAGCA
.........((((....(((.....)))(((((........)))))...))))......(((.(((.(((((-(.......)))))).))).))) ( -26.80)
>DroEre_CAF1 49304 94 + 1
CCACAAAAACCAGAGCUGGCAUAUUGCCGCUAUUGUCUUUUAUAGUUUCCUGGAACAUUUGCCGCUUUGGCU-UCCAUCUCGGGCCACAGCAGCA
.........((((....(((.....)))(((((........)))))...))))......(((.(((.(((((-(.......)))))).))).))) ( -26.80)
>DroYak_CAF1 53853 94 + 1
CCACAAAAACCAGAGCUGGCAUAUUGCCGCUAUUGUCUUUUAUAGUUUCCUGGAACAUUUGCCGCUUUGGCU-UCCAUCUCGAGCCACAGCAGCA
.........((((....(((.....)))(((((........)))))...))))......(((.(((.(((((-(.......)))))).))).))) ( -27.60)
>DroAna_CAF1 75268 87 + 1
CCACAAAAACCAGAGCUGGCAUAUUGCCGCUAUUGUCUUUUAUAGUUUCCUGGAACAUUUGCCGCUUUGGCU-UCCAUCUUGAACCAC-------
.........(((((((.((((.....(((((((........))))).....))......)))))))))))..-...............------- ( -20.10)
>consensus
CCACAAAAACCAGAGCUGGCAUAUUGCCGCUAUUGUCUUUUAUAGUUUCCUGGAACAUUUGCCGCUUUGGCU_UCCAUCUCGGGCCACAGCAGCA
.........((((....(((.....)))(((((........)))))...)))).......((.(((.(((((..........))))).))).)). (-21.84 = -22.62 +   0.78)

alignment

secondary structure

dotplot

Window 3

Location	20,994,761 – 20,994,855
Length	94
Sequences	6
Columns	95
Reading direction	reverse
Mean pairwise identity	95.90
Mean single sequence MFE	-31.25
Consensus MFE	-27.96
Energy contribution	-28.77
Covariance contribution	0.81
Combinations/Pair	1.07
Mean z-score	-2.66
Structure conservation index	0.89
SVM decision value	3.07
SVM RNA-class probability	0.998329
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20994761 94 - 22407834
UGCUGCUGUGGCCCGAGAUGGA-AGCCAAAGCGGCAAAUGUUCCAGGAAACUAUAAAAGACAAUAGCGGCAAUAUGCCAGCUCUGGUUUUUGUGG
(((((((.((((((.....)).-.)))).)))))))......((((....))...((((((...((((((.....))).)))...))))))..)) ( -32.60)
>DroSec_CAF1 43512 95 - 1
UGCUGCUGUGGCCCGAGAUGGAAAGCCAAAGCGGCAAAUGUUCCAGGAAACUAUAAAAGACAAUAGCGGCAAUAUGCCAGCUCUGGUUUUUGUGG
(((((((.((((((.....))...)))).)))))))......((((....))...((((((...((((((.....))).)))...))))))..)) ( -32.20)
>DroSim_CAF1 43940 94 - 1
UGCUGCUGUGGCCCGAGAUGGA-AGCCAAAGCGGCAAAUGUUCCAGGAAACUAUAAAAGACAAUAGCGGCAAUAUGCCAGCUCUGGUUUUUGUGG
(((((((.((((((.....)).-.)))).)))))))......((((....))...((((((...((((((.....))).)))...))))))..)) ( -32.60)
>DroEre_CAF1 49304 94 - 1
UGCUGCUGUGGCCCGAGAUGGA-AGCCAAAGCGGCAAAUGUUCCAGGAAACUAUAAAAGACAAUAGCGGCAAUAUGCCAGCUCUGGUUUUUGUGG
(((((((.((((((.....)).-.)))).)))))))......((((....))...((((((...((((((.....))).)))...))))))..)) ( -32.60)
>DroYak_CAF1 53853 94 - 1
UGCUGCUGUGGCUCGAGAUGGA-AGCCAAAGCGGCAAAUGUUCCAGGAAACUAUAAAAGACAAUAGCGGCAAUAUGCCAGCUCUGGUUUUUGUGG
(((((((.((((((......).-))))).)))))))......((((....))...((((((...((((((.....))).)))...))))))..)) ( -33.50)
>DroAna_CAF1 75268 87 - 1
-------GUGGUUCAAGAUGGA-AGCCAAAGCGGCAAAUGUUCCAGGAAACUAUAAAAGACAAUAGCGGCAAUAUGCCAGCUCUGGUUUUUGUGG
-------..........(..((-(((((.(((.((...((((..((....))......))))...))(((.....))).))).)))))))..).. ( -24.00)
>consensus
UGCUGCUGUGGCCCGAGAUGGA_AGCCAAAGCGGCAAAUGUUCCAGGAAACUAUAAAAGACAAUAGCGGCAAUAUGCCAGCUCUGGUUUUUGUGG
(((((((.((((((.....))...)))).)))))))......((((....))...((((((...((((((.....))).)))...))))))..)) (-27.96 = -28.77 +   0.81)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:40:36 2006