Locus 1522

Sequence ID	3L_DroMel_CAF1
Location	4,406,678 – 4,406,768
Length	90
Max. P	0.857277

overview

Window 9

Location	4,406,678 – 4,406,768
Length	90
Sequences	6
Columns	107
Reading direction	forward
Mean pairwise identity	77.56
Mean single sequence MFE	-27.88
Consensus MFE	-14.08
Energy contribution	-14.92
Covariance contribution	0.83
Combinations/Pair	1.00
Mean z-score	-1.99
Structure conservation index	0.51
SVM decision value	0.37
SVM RNA-class probability	0.710085
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4406678 90 + 23771897
GCUUUGUCU----GGCCA-AAAUAAUGUGGCUUUGUUG-----------CCAUUGCUGCUGAUGCAGCACUUUUCCUUUUUCGCGAGGCUCAUAA-AGCCAAAGACU
(((((((..----((((.-.......(((((......)-----------))))((((((....)))))).................)))).))))-)))........ ( -29.20)
>DroPse_CAF1 5459 105 + 1
GCUUUGUCUGCCUGGCCAAAAAUUAUGUGGCUUUGUGGCUGUUGCCUAGCCUCUUCUGCUGAUGCAGCACUUUUCGUUGU--GCGGGGCUCAUAAAAACCAAAGACU
.....((((((..(((((.........)))))..))(((....))).((((((...(((....)))((((........))--))))))))............)))). ( -31.60)
>DroEre_CAF1 4871 90 + 1
GCUUUGUCU----GGCCA-AAAUAAUGUGGCUUUGUUG-----------CCAUUGCUGCUGAUGCAGCACUUUUCCUUUUUCGCAGGGCUCAUAA-AGCCAAAGACU
(((((((..----((((.-.......(((((......)-----------))))((((((....)))))).................)))).))))-)))........ ( -29.00)
>DroYak_CAF1 4938 95 + 1
GCUUUGUCU----GGCCA-AAAUAAUGUGGCUUUGUUGAUGUG------GCAUUGCUGCUGAUGCAGCACUUUUCCUUUUUCGCGGCGCUCAUAA-AACCAAAGACU
.....((((----(((((-........)))))..(((..((((------((..((((((....)))))).....((........)).)).)))).-)))...)))). ( -24.70)
>DroAna_CAF1 5314 70 + 1
GCUUUGUCU---UGGCCA-AAAUUAUGUGGCUUUGUU--------------------GCUGAUGCAGCACUUUUGUU------------UCAUAA-AACCAAAGACU
.....((((---((((((-........))))).((((--------------------((....))))))........------------......-.....))))). ( -17.40)
>DroPer_CAF1 5745 105 + 1
GCUUUGUCUGCCUGGCCAAAAAUUAUGUGGCUUUGUGGCUGGUGCCUAGCCUCUGCUGCUGAUGCAGCACUUUUCGUUGU--GCGGGGCUCAUAAAAACCAAAGACU
..(((((..((((.(((((.......(.((((....(((....))).)))).)((((((....)))))).......))).--)).))))..)))))........... ( -35.40)
>consensus
GCUUUGUCU____GGCCA_AAAUAAUGUGGCUUUGUUG___________CCAUUGCUGCUGAUGCAGCACUUUUCCUUUU__GCGGGGCUCAUAA_AACCAAAGACU
.(((((.......(((((.........))))).....................((((((....))))))..............................)))))... (-14.08 = -14.92 +   0.83)

alignment

secondary structure

dotplot

Window 0

Location	4,406,678 – 4,406,768
Length	90
Sequences	6
Columns	107
Reading direction	reverse
Mean pairwise identity	77.56
Mean single sequence MFE	-26.20
Consensus MFE	-13.27
Energy contribution	-14.10
Covariance contribution	0.83
Combinations/Pair	1.00
Mean z-score	-2.19
Structure conservation index	0.51
SVM decision value	0.81
SVM RNA-class probability	0.857277
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4406678 90 - 23771897
AGUCUUUGGCU-UUAUGAGCCUCGCGAAAAAGGAAAAGUGCUGCAUCAGCAGCAAUGG-----------CAACAAAGCCACAUUAUUU-UGGCC----AGACAAAGC
.((((..((((-(...)))))..((.((((........((((((....)))))).(((-----------(......)))).....)))-).)).----))))..... ( -27.90)
>DroPse_CAF1 5459 105 - 1
AGUCUUUGGUUUUUAUGAGCCCCGC--ACAACGAAAAGUGCUGCAUCAGCAGAAGAGGCUAGGCAACAGCCACAAAGCCACAUAAUUUUUGGCCAGGCAGACAAAGC
.((((((((((.(((((((((.(((--((........))))(((....)))...).)))).(((....))).........))))).....))))))..))))..... ( -30.00)
>DroEre_CAF1 4871 90 - 1
AGUCUUUGGCU-UUAUGAGCCCUGCGAAAAAGGAAAAGUGCUGCAUCAGCAGCAAUGG-----------CAACAAAGCCACAUUAUUU-UGGCC----AGACAAAGC
.((((..((((-..((((..(((.......))).....((((((....)))))).(((-----------(......))))..))))..-.))))----))))..... ( -27.80)
>DroYak_CAF1 4938 95 - 1
AGUCUUUGGUU-UUAUGAGCGCCGCGAAAAAGGAAAAGUGCUGCAUCAGCAGCAAUGC------CACAUCAACAAAGCCACAUUAUUU-UGGCC----AGACAAAGC
.((((.(((((-((.(((((...))......((.....((((((....))))))...)------)...)))..)))))))((......-))...----))))..... ( -22.80)
>DroAna_CAF1 5314 70 - 1
AGUCUUUGGUU-UUAUGA------------AACAAAAGUGCUGCAUCAGC--------------------AACAAAGCCACAUAAUUU-UGGCCA---AGACAAAGC
.(((((.((((-(((((.------------........(((((...))))--------------------).........)))))...-.)))))---))))..... ( -16.17)
>DroPer_CAF1 5745 105 - 1
AGUCUUUGGUUUUUAUGAGCCCCGC--ACAACGAAAAGUGCUGCAUCAGCAGCAGAGGCUAGGCACCAGCCACAAAGCCACAUAAUUUUUGGCCAGGCAGACAAAGC
.((((..(((((....)))))..((--....((((((.((((((....))))))..((((.(((....)))....))))......)))))).....))))))..... ( -32.50)
>consensus
AGUCUUUGGUU_UUAUGAGCCCCGC__AAAAGGAAAAGUGCUGCAUCAGCAGCAAUGG___________CAACAAAGCCACAUAAUUU_UGGCC____AGACAAAGC
.((((.................................((((((....))))))......................((((.(.....).)))).....))))..... (-13.27 = -14.10 +   0.83)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:09:48 2006