Locus 2422

Sequence ID	3R_DroMel_CAF1
Location	6,763,178 – 6,763,338
Length	160
Max. P	0.998501

overview

Window 6

Location	6,763,178 – 6,763,298
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	94.92
Mean single sequence MFE	-28.84
Consensus MFE	-27.12
Energy contribution	-26.88
Covariance contribution	-0.24
Combinations/Pair	1.12
Mean z-score	-1.96
Structure conservation index	0.94
SVM decision value	3.12
SVM RNA-class probability	0.998501
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6763178 120 - 27905053
UAUUUAAAGUAAGCCAAAGUUAUGCCAAAAAAGGCGCCAUAAGAAUGGUAAAUAAUGUAUGUGUCUUGGGCAGGUGAAGCUGGUGAAAUCGCCAGGGAAAUAAGCAAACUUUAUACCACA
....((((((..(((.(((.((((((......)))(((((....)))))...........))).))).)))........((((((....))))))............))))))....... ( -29.50)
>DroSec_CAF1 27457 120 - 1
UAUUUAAAGUAAGCAAAAGUUAUGCCAAAAAAGGCGCCAUAAGAAUGGUAAAUAAUGUAUGUGUCUUGGGCAGGUGAGGCUGGCGAUUUCGCUAGGGAAAUAAGCAAACUUUAUGCCACA
......(((...(((...((((((((......)))(((((....)))))..)))))...)))..))).((((...(((.((((((....))))))(........)...)))..))))... ( -29.80)
>DroSim_CAF1 31782 120 - 1
UAUUUAAAGUAAGCAAAAGUUAUGCCAAAAAAGGCGCCAUAAGAAUGGUAAAUAAUGUAUGUGUCUUGGGCAGGUGAAGCUGGCGAUUUCGCUAGGGAAAUAAGCAAACUUUAUGCCACA
............(((((((((.((((....(((((((.(((...((........)).)))))))))).)))).......((((((....))))))...........)))))).))).... ( -29.70)
>DroEre_CAF1 11837 120 - 1
UAUUUAAAGUAAGCCAAAGUUAUGCCAAAAAAGGCGCCAUAAGAAUGGUAAAUAAUGCAUGUGUCUUGGGCAGGUGAAGCUGGCGAAAUCGCUGGGGAAAUAAGCAAACUUUAUGACAGA
....((((((..(((........(((......)))(((.(((((...(((.....))).....)))))))).)))....(..(((....)))..)............))))))....... ( -29.50)
>DroYak_CAF1 23966 120 - 1
UAUUUAAAGUAAGCCAAAGUUAUGCCAAAAAAGGCGCCAUAAGAAUGGUAAAUAAUGUAUGUGUCUUGGGCAGGUGAAGCUGGCGAAAUCACAGGGGAAAUAAGCAAACUUUAUGCCAGA
....((((((..((....((((((((......)))(((((....)))))..)))))...((((..((.(.(((......))).).))..))))..........))..))))))....... ( -25.70)
>consensus
UAUUUAAAGUAAGCCAAAGUUAUGCCAAAAAAGGCGCCAUAAGAAUGGUAAAUAAUGUAUGUGUCUUGGGCAGGUGAAGCUGGCGAAAUCGCUAGGGAAAUAAGCAAACUUUAUGCCACA
....((((((..((....((((((((......)))(((((....)))))..))))).(((.(((.....))).)))...((((((....))))))........))..))))))....... (-27.12 = -26.88 +  -0.24)

alignment

secondary structure

dotplot

Window 7

Location	6,763,218 – 6,763,338
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	95.67
Mean single sequence MFE	-23.50
Consensus MFE	-20.96
Energy contribution	-21.24
Covariance contribution	0.28
Combinations/Pair	1.10
Mean z-score	-1.63
Structure conservation index	0.89
SVM decision value	1.46
SVM RNA-class probability	0.955961
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6763218 120 + 27905053
GCUUCACCUGCCCAAGACACAUACAUUAUUUACCAUUCUUAUGGCGCCUUUUUUGGCAUAACUUUGGCUUACUUUAAAUAAAUCAACAUUGGCCAGGCCAGACACGGCCACUCCCACUUU
.........(((.(((................((((....)))).(((......)))....))).))).....................(((...((((......))))....))).... ( -23.70)
>DroSec_CAF1 27497 120 + 1
GCCUCACCUGCCCAAGACACAUACAUUAUUUACCAUUCUUAUGGCGCCUUUUUUGGCAUAACUUUUGCUUACUUUAAAUAAAUCAACGCUGGCCCGGCCAGACACGGCAACUCCCAUUUG
........((((.............(((((((((((....)))).(((......))).................)))))))......((((((...))))).)..))))........... ( -23.00)
>DroSim_CAF1 31822 120 + 1
GCUUCACCUGCCCAAGACACAUACAUUAUUUACCAUUCUUAUGGCGCCUUUUUUGGCAUAACUUUUGCUUACUUUAAAUAAAUCAACGCUGGCCAGGCCAGACACGGCAACUCCCACUUU
........((((.............(((((((((((....)))).(((......))).................)))))))......((((((...))))).)..))))........... ( -23.00)
>DroEre_CAF1 11877 120 + 1
GCUUCACCUGCCCAAGACACAUGCAUUAUUUACCAUUCUUAUGGCGCCUUUUUUGGCAUAACUUUGGCUUACUUUAAAUAAAUCAACGCCGGCCAGGCCAGACACGGCAGCUCCCACUUU
.......(((((.((((...(((..........))))))).(((((((......)))......((((((.....................)))))))))).....))))).......... ( -23.80)
>DroYak_CAF1 24006 120 + 1
GCUUCACCUGCCCAAGACACAUACAUUAUUUACCAUUCUUAUGGCGCCUUUUUUGGCAUAACUUUGGCUUACUUUAAAUAAAUCAACGCUGGCCCUGCCAGACACGGCAACUCCCACUUU
(((......(((.(((................((((....)))).(((......)))....))).)))...................((((((...))))).)..)))............ ( -24.00)
>consensus
GCUUCACCUGCCCAAGACACAUACAUUAUUUACCAUUCUUAUGGCGCCUUUUUUGGCAUAACUUUGGCUUACUUUAAAUAAAUCAACGCUGGCCAGGCCAGACACGGCAACUCCCACUUU
(((......(((.(((................((((....)))).(((......)))....))).)))....................(((((...)))))....)))............ (-20.96 = -21.24 +   0.28)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:35:33 2006