Locus 5195

Sequence ID	2L_DroMel_CAF1
Location	14,702,736 – 14,702,828
Length	92
Max. P	0.997121

overview

Window 7

Location	14,702,736 – 14,702,828
Length	92
Sequences	5
Columns	101
Reading direction	forward
Mean pairwise identity	71.19
Mean single sequence MFE	-24.82
Consensus MFE	-3.98
Energy contribution	-6.78
Covariance contribution	2.80
Combinations/Pair	1.00
Mean z-score	-1.65
Structure conservation index	0.16
SVM decision value	0.14
SVM RNA-class probability	0.600636
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14702736 92 + 22407834
UAAUGACAAGACAACACCCAGAAAGCCACCCAAUGGUUGGUGGUUGGGGGUUUGGGGUUUUGGGG---UGGU----UAUAUGCGAAUCUCGAUCAUCUU--
...........(((.((((...(((((.((((((.(....).))))))))))).)))).)))(((---((((----(.............)))))))).-- ( -28.52)
>DroSec_CAF1 58896 84 + 1
UAAUGACAAGACAACACCCAGAAAGCCACCCAAUGGUCGGUGGUUGGGGGUU-------UUG-GG---UGGC----UAUAUGCGAAUCUCGAUCAUCUG--
..(((((.(((...((((((((..(((.((((((.(....).))))))))))-------)))-))---))((----.....))...))).).))))...-- ( -28.90)
>DroSim_CAF1 59173 78 + 1
UAAUGACAAGACAACACCCAGAAAGCCACCCAAUGGUCGGUGGUUGGGGGUU-------UUGGGG---UGGC----UAUAAGC-------GAUCAUCUG--
..(((((.......(((((..((((((.((((((.(....).))))))))))-------)).)))---))((----.....))-------).))))...-- ( -27.50)
>DroEre_CAF1 58473 76 + 1
UAAUGACAAGACAACACCCAGAAAACCACCCAAUGGAUA-------CCAA-------------UG---UGGUAUGGGAUAUGCGAAUCUCGAUCAACUG--
...(((..........((((....(((((....(((...-------))).-------------.)---)))).)))).....((.....)).)))....-- ( -13.50)
>DroAna_CAF1 55941 87 + 1
UAAUGACGAGAGAACACCCA-AAAACCACCCAGUUGGGGCGGGCUGG--GCU-------CUGGGGAUAUAGA----UAUAUGCGAAUCUCGAUCAUCUCGG
......(((((.....((((-.(..((((((.((....))))).)))--..)-------.))))(((..(((----(........))))..))).))))). ( -25.70)
>consensus
UAAUGACAAGACAACACCCAGAAAGCCACCCAAUGGUCGGUGGUUGGGGGUU_______UUGGGG___UGGC____UAUAUGCGAAUCUCGAUCAUCUG__
................((((....((((((........))))))))))..................................................... ( -3.98 =  -6.78 +   2.80)

alignment

secondary structure

dotplot

Window 8

Location	14,702,736 – 14,702,828
Length	92
Sequences	5
Columns	101
Reading direction	reverse
Mean pairwise identity	71.19
Mean single sequence MFE	-24.79
Consensus MFE	-9.93
Energy contribution	-12.05
Covariance contribution	2.12
Combinations/Pair	1.17
Mean z-score	-2.55
Structure conservation index	0.40
SVM decision value	2.80
SVM RNA-class probability	0.997121
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14702736 92 - 22407834
--AAGAUGAUCGAGAUUCGCAUAUA----ACCA---CCCCAAAACCCCAAACCCCCAACCACCAACCAUUGGGUGGCUUUCUGGGUGUUGUCUUGUCAUUA
--..(((((.((((((..(((....----....---.((((.((..(((....(((((..........))))))))..)).))))))).))))))))))). ( -21.30)
>DroSec_CAF1 58896 84 - 1
--CAGAUGAUCGAGAUUCGCAUAUA----GCCA---CC-CAA-------AACCCCCAACCACCGACCAUUGGGUGGCUUUCUGGGUGUUGUCUUGUCAUUA
--..(((((.((((((.(((....(----((((---((-(((-------...................))))))))))......)))..))))))))))). ( -29.71)
>DroSim_CAF1 59173 78 - 1
--CAGAUGAUC-------GCUUAUA----GCCA---CCCCAA-------AACCCCCAACCACCGACCAUUGGGUGGCUUUCUGGGUGUUGUCUUGUCAUUA
--.(((..(.(-------(((((.(----((((---(((...-------.....................))))))))...)))))))..)))........ ( -22.46)
>DroEre_CAF1 58473 76 - 1
--CAGUUGAUCGAGAUUCGCAUAUCCCAUACCA---CA-------------UUGG-------UAUCCAUUGGGUGGUUUUCUGGGUGUUGUCUUGUCAUUA
--....(((.((((((..(((...((((.((((---(.-------------.(((-------...)))....)))))....))))))).)))))))))... ( -21.80)
>DroAna_CAF1 55941 87 - 1
CCGAGAUGAUCGAGAUUCGCAUAUA----UCUAUAUCCCCAG-------AGC--CCAGCCCGCCCCAACUGGGUGGUUUU-UGGGUGUUCUCUCGUCAUUA
....(((((.(((((...((.....----(((........))-------)((--((((.((((((.....))))))...)-)))))))..)))))))))). ( -28.70)
>consensus
__CAGAUGAUCGAGAUUCGCAUAUA____ACCA___CCCCAA_______AACCCCCAACCACCAACCAUUGGGUGGCUUUCUGGGUGUUGUCUUGUCAUUA
....(((((.(((((...((((.......((((....(((((..........................))))))))).......))))..)))))))))). ( -9.93 = -12.05 +   2.12)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:38:19 2006