Locus 7103

Sequence ID	X_DroMel_CAF1
Location	17,818,334 – 17,818,470
Length	136
Max. P	0.938126

overview

Window 6

Location	17,818,334 – 17,818,432
Length	98
Sequences	4
Columns	106
Reading direction	reverse
Mean pairwise identity	86.86
Mean single sequence MFE	-28.45
Consensus MFE	-17.81
Energy contribution	-19.00
Covariance contribution	1.19
Combinations/Pair	1.12
Mean z-score	-2.22
Structure conservation index	0.63
SVM decision value	0.21
SVM RNA-class probability	0.636410
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17818334 98 - 22224390
UAGCUUCCGCUAUAGCUAUGG--------CUUUAGCUAACCCUAAAGGCCCUGCGAUAUACCCACAACGCUUCAAAAGCGGCAGGUGCAACACACCGGUCUGUCCA
((((....))))..((...((--------((((((......))))).)))..))((((.(((.....((((.....))))...((((.....))))))).)))).. ( -27.50)
>DroSec_CAF1 76194 97 - 1
UAGCUUUCGCUAUAGCCAUGU--------CUUUAGCUAACCCUAAAGGCCCUGCGAUAUCCCCACUUCGCUUCAAAAGCGGCAGGUGCAACACAC-GCUCUGUCCA
..(((((.((....))...((--------((((((......))))))))...((((..........))))....)))))((((((.((.......-)))))))).. ( -24.20)
>DroEre_CAF1 78425 97 - 1
UAGCUUCCGCUAUAGCUUUGG--------CUUUAACUAACCCUAAAGGCCCUGCGAUAUCCCCACUUUGCCACAAAAGCGGCAGGUGCAACACAC-GCUCUGGCCA
.((((...((....))...))--------))...............((((..(((.......(((((.(((.(....).)))))))).......)-))...)))). ( -26.44)
>DroYak_CAF1 76171 105 - 1
UAGCUUCCGCCAUGGCUUUGGCUAUAUGGCUUUAGCUAACCCCAAAGGCCCAGCGAUAUCCCCACUUCGCUUCAAAAGCGGCAGGUGCAACACAC-GCUCUGGCCA
(((((...((((((((....)))..)))))...)))))........((((.((((.......(((((((((.....)))))..)))).......)-)))..)))). ( -35.64)
>consensus
UAGCUUCCGCUAUAGCUAUGG________CUUUAGCUAACCCUAAAGGCCCUGCGAUAUCCCCACUUCGCUUCAAAAGCGGCAGGUGCAACACAC_GCUCUGGCCA
........((((.(((.............((((((......))))))((((((((.......)....((((.....))))))))).))........))).)))).. (-17.81 = -19.00 +   1.19)

alignment

secondary structure

dotplot

Window 7

Location	17,818,372 – 17,818,470
Length	98
Sequences	4
Columns	107
Reading direction	forward
Mean pairwise identity	87.15
Mean single sequence MFE	-31.05
Consensus MFE	-22.55
Energy contribution	-22.43
Covariance contribution	-0.12
Combinations/Pair	1.10
Mean z-score	-2.61
Structure conservation index	0.73
SVM decision value	1.27
SVM RNA-class probability	0.938126
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17818372 98 + 22224390
GUUGUGGGUAUAUCGCAGGGCCUUUAGGGUUAGCUAAAG--------CCAUAGCUAUAGCGGAAGCUAAAGCACAACACGAUUUUUAUAGAC-CCACAUAGCGAAGU
(((((((((..((((...(((.(((((......))))))--------))...(((.((((....)))).)))......))))........))-)))))..))..... ( -32.70)
>DroSec_CAF1 76231 98 + 1
GAAGUGGGGAUAUCGCAGGGCCUUUAGGGUUAGCUAAAG--------ACAUGGCUAUAGCGAAAGCUAAAGCACAACACGAUUUUUAUAGAC-CCACACAGCGAAGU
...(((((..(((.((..(.((....)).)..)).....--------...(((((.((((....)))).))).))...........)))..)-)))).......... ( -29.00)
>DroEre_CAF1 78462 99 + 1
AAAGUGGGGAUAUCGCAGGGCCUUUAGGGUUAGUUAAAG--------CCAAAGCUAUAGCGGAAGCUAAAGCACAACUCGAUUUUUAUAGACCCCACACAGCGAAAU
...((((((..((((.(((((.(((((......))))))--------))...(((.((((....)))).)))....)))))).........)))))).......... ( -31.70)
>DroYak_CAF1 76208 106 + 1
GAAGUGGGGAUAUCGCUGGGCCUUUGGGGUUAGCUAAAGCCAUAUAGCCAAAGCCAUGGCGGAAGCUAAAGCACAACACGAUUUUUAUAGAC-CCACACAGCAAAGU
...(((((..(((.(((((((.(((((......))))))))...))))....((..((((....))))..))..............)))..)-)))).......... ( -30.80)
>consensus
GAAGUGGGGAUAUCGCAGGGCCUUUAGGGUUAGCUAAAG________CCAAAGCUAUAGCGGAAGCUAAAGCACAACACGAUUUUUAUAGAC_CCACACAGCGAAGU
...(((((..(((.((.((.((....)).)).))..................(((.((((....)))).)))..............)))..).)))).......... (-22.55 = -22.43 +  -0.12)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:30:11 2006