Locus 2177

Sequence ID	3L_DroMel_CAF1
Location	5,931,806 – 5,931,908
Length	102
Max. P	0.649598

overview

Window 6

Location	5,931,806 – 5,931,908
Length	102
Sequences	6
Columns	109
Reading direction	forward
Mean pairwise identity	80.16
Mean single sequence MFE	-29.71
Consensus MFE	-18.42
Energy contribution	-19.67
Covariance contribution	1.25
Combinations/Pair	1.08
Mean z-score	-1.52
Structure conservation index	0.62
SVM decision value	0.05
SVM RNA-class probability	0.556443
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5931806 102 + 23771897
--AGU--UGGCUCUGGAUCUCUGAUCUUUUUUUU--UUUUUUUGGUGCAUUGCCAAUUGUCAUAAUGGCCGAGACGGCGCU-GGCCAAGCUGGCAAUUAUGAGUUAAGA
--(((--((((..((.(((...............--.......))).))..))))))).(((((((.((((...))))((.-.((...))..)).)))))))....... ( -29.35)
>DroPse_CAF1 31410 95 + 1
--ACU--UGGCCC--GCUCUUUGCUUAAU------UCUUUUUUGGUGCAUUGCCAAUUGUCAUAAUGGCCGAGACGGCGCU-GGCCAUGCUGGCAAUUAUGAGUUAAG-
--...--......--........((((((------((......(((.....)))((((((((..((((((.((......))-))))))..))))))))..))))))))- ( -27.70)
>DroEre_CAF1 24235 94 + 1
--AGU--UGGCUCUGGCUCUCUGCCCU----------UUUUUUGGUGCAUUGCCAAUUGUCAUAAUGGCCGAGACGGCGCU-GGCCAAGCUGGCAAUUAUGAGUUAAGA
--..(--((((((.(((....(((((.----------......)).)))..)))((((((((...(((((.((......))-)))))...))))))))..))))))).. ( -32.90)
>DroYak_CAF1 25659 105 + 1
--AGU-UUGGCUCUGGCUCUCUGCCCCUUUUUUUUGUUUUUUUGGUGCAUUGCCAAUUGUCAUAAUGGCCGAGACGGCGCU-GGCCAAGCUGGCAAUUAUGAGUUAAGA
--..(-(((((((.(((....(((.((................)).)))..)))((((((((...(((((.((......))-)))))...))))))))..)))))))). ( -32.39)
>DroMoj_CAF1 28880 92 + 1
UCAGGC--AGCUCUGG----CUGCUCU----------UAUAUUGGUGCAAUGCCAAUUGUCAUAAUGGCGCAGACGUUGCUUGACUAUGCGGGCAAUUAUGAGUUAAG-
((((((--((((((((----((.....----------...((((((.....)))))).........))).)))).)))))))))........................- ( -26.43)
>DroAna_CAF1 53606 93 + 1
--AGU--UGG-----GAUCUCUGGUCUGUG-----GCUUUUUUGGUGCAUUGCCAAUUGUCAUAAUGGCCGAGACGGCGCU-GGCGAAGCUGGCAAUUAUGAGUUAAG-
--.((--((.-----..((((.((((((((-----((....(((((.....)))))..))))))..))))))))))))((.-.((...))..))..............- ( -29.50)
>consensus
__AGU__UGGCUCUGGCUCUCUGCUCU_U________UUUUUUGGUGCAUUGCCAAUUGUCAUAAUGGCCGAGACGGCGCU_GGCCAAGCUGGCAAUUAUGAGUUAAG_
.......((((((..............................(((.....)))((((((((...(((((.((......)).)))))...))))))))..))))))... (-18.42 = -19.67 +   1.25)

alignment

secondary structure

dotplot

Window 7

Location	5,931,806 – 5,931,908
Length	102
Sequences	6
Columns	109
Reading direction	reverse
Mean pairwise identity	80.16
Mean single sequence MFE	-23.68
Consensus MFE	-14.18
Energy contribution	-14.57
Covariance contribution	0.39
Combinations/Pair	1.06
Mean z-score	-1.78
Structure conservation index	0.60
SVM decision value	0.24
SVM RNA-class probability	0.649598
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5931806 102 - 23771897
UCUUAACUCAUAAUUGCCAGCUUGGCC-AGCGCCGUCUCGGCCAUUAUGACAAUUGGCAAUGCACCAAAAAAA--AAAAAAAAGAUCAGAGAUCCAGAGCCA--ACU--
.......(((((((.(((((..((((.-...)))).)).))).)))))))...(((((..((...........--........((((...))))))..))))--)..-- ( -22.20)
>DroPse_CAF1 31410 95 - 1
-CUUAACUCAUAAUUGCCAGCAUGGCC-AGCGCCGUCUCGGCCAUUAUGACAAUUGGCAAUGCACCAAAAAAGA------AUUAAGCAAAGAGC--GGGCCA--AGU--
-......(((((((.(((((.(((((.-...))))))).))).)))))))...(((((..(((...........------............))--).))))--)..-- ( -25.10)
>DroEre_CAF1 24235 94 - 1
UCUUAACUCAUAAUUGCCAGCUUGGCC-AGCGCCGUCUCGGCCAUUAUGACAAUUGGCAAUGCACCAAAAAA----------AGGGCAGAGAGCCAGAGCCA--ACU--
.......(((((((.(((((..((((.-...)))).)).))).)))))))...(((((..(((.((......----------.)))))....))))).....--...-- ( -27.60)
>DroYak_CAF1 25659 105 - 1
UCUUAACUCAUAAUUGCCAGCUUGGCC-AGCGCCGUCUCGGCCAUUAUGACAAUUGGCAAUGCACCAAAAAAACAAAAAAAAGGGGCAGAGAGCCAGAGCCAA-ACU--
.......(((((((.(((((..((((.-...)))).)).))).)))))))...(((((......((................))(((.....)))...)))))-...-- ( -27.79)
>DroMoj_CAF1 28880 92 - 1
-CUUAACUCAUAAUUGCCCGCAUAGUCAAGCAACGUCUGCGCCAUUAUGACAAUUGGCAUUGCACCAAUAUA----------AGAGCAG----CCAGAGCU--GCCUGA
-((((..(((((((.((..(((..((......))...))))).)))))))..(((((.......))))).))----------)).((((----(....)))--)).... ( -21.00)
>DroAna_CAF1 53606 93 - 1
-CUUAACUCAUAAUUGCCAGCUUCGCC-AGCGCCGUCUCGGCCAUUAUGACAAUUGGCAAUGCACCAAAAAAGC-----CACAGACCAGAGAUC-----CCA--ACU--
-.....(((...((((((((((.....-)))((((...))))............)))))))((.........))-----.........)))...-----...--...-- ( -18.40)
>consensus
_CUUAACUCAUAAUUGCCAGCUUGGCC_AGCGCCGUCUCGGCCAUUAUGACAAUUGGCAAUGCACCAAAAAA________A_AGAGCAGAGAGCCAGAGCCA__ACU__
.......(((((((.(((....((((.....))))....))).)))))))...((((.......))))......................................... (-14.18 = -14.57 +   0.39)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:26:08 2006