Locus 2049

Sequence ID	X_DroMel_CAF1
Location	5,625,012 – 5,625,123
Length	111
Max. P	0.997213

overview

Window 4

Location	5,625,012 – 5,625,105
Length	93
Sequences	6
Columns	97
Reading direction	forward
Mean pairwise identity	65.43
Mean single sequence MFE	-34.45
Consensus MFE	-16.14
Energy contribution	-15.98
Covariance contribution	-0.16
Combinations/Pair	1.63
Mean z-score	-2.98
Structure conservation index	0.47
SVM decision value	2.82
SVM RNA-class probability	0.997213
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5625012 93 + 22224390
---AUCAGCAGGGAUUUCAGCAUGGGUUUCAGCAGGAGUUUCA-GCAGGGAUCUCAGCAGGGAUUUCAGCAGGGAUCUCGGCAGGAACUUCGGCAGC
---....((.(..((((......))))..).((.((((((((.-((.((((((((.((..........)).)))))))).)).)))))))).)).)) ( -31.30)
>DroSec_CAF1 14719 81 + 1
---AUCAGCUGGGAUUUCAUCUGGGAUUUCAGCAGGGGUUUCA-GCAGGGUUU------------UCAGCAGGGAUCUCGGCAGGAACUUCGGCAGG
---....((((..((..(....)..))..)))).((((((((.-((.(((.(.------------.(....)..).))).)).))))))))...... ( -29.60)
>DroSim_CAF1 15069 81 + 1
---AUCAGCUGGGAUUUCAGCGGGGAUCUCAGCAGGGCUUUCA-GCAGGGAUC------------UCGGCUGGGAUCUCGGCAGGGAUUUCAGCAGG
---....((((..((..(.((.(((((((((((.(((.(..(.-...)..).)------------)).))))))))))).)).)..))..))))... ( -43.50)
>DroYak_CAF1 14482 96 + 1
AGAAUCAGCAGGGAGUUCAGCUGGAAUUUCCAUUGGAGUUUCA-GCAGGGGUUUCAACAGGAGUUUCAGCUGGGGUUUCAGCUGGGAUUUCAGCUGG
.....((((.(..(.(((.(((((((((((....)))))))))-)).))).)..)....(((((..(((((((....)))))))..))))).)))). ( -42.20)
>DroMoj_CAF1 16737 76 + 1
--------CAGCAAUUUCGACUAGAGUUUCAGCUGGAGUUUUA-GCGGGAAU------------CUCAGCCUGGAUCUCUGCUGGAAUUUCUGCAGC
--------(((.(((((((..(((((.((((((((..(((((.-...)))))------------..))).))))).))))).))))))).))).... ( -24.50)
>DroAna_CAF1 13988 84 + 1
---AUCUUUUUCAGUGUCGGCGGGAGCUUCGGCGGGAGUUUCUGGCUGGGAUUC----------CUCAGCAGGAGUCUCUGCUGGGACUUCGGCAAG
---...........((((..((((((((((....))))))))))((((((....----------)))))).((((((((....)))))))))))).. ( -35.60)
>consensus
___AUCAGCAGGGAUUUCAGCUGGAAUUUCAGCAGGAGUUUCA_GCAGGGAUU____________UCAGCAGGGAUCUCGGCAGGAACUUCGGCAGG
.......(((((((((((....((((((((....))))))))..((.((((((....................)))))).)).)))))))))))... (-16.14 = -15.98 +  -0.16)

alignment

secondary structure

dotplot

Window 5

Location	5,625,026 – 5,625,123
Length	97
Sequences	6
Columns	108
Reading direction	forward
Mean pairwise identity	65.42
Mean single sequence MFE	-37.17
Consensus MFE	-16.13
Energy contribution	-16.55
Covariance contribution	0.42
Combinations/Pair	1.44
Mean z-score	-2.65
Structure conservation index	0.43
SVM decision value	2.48
SVM RNA-class probability	0.994493
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5625026 97 + 22224390
CAGCAUGGGUUUCAGCAGGAGUUUCA-GCAGGGAUCUCAGCAGGGAUUUCAGCAGGGAUCUCGGCAGGAACUUCGGCAGCGAUCUCAGCAGGACUCUC----------
......((((((..((.((((((((.-((.((((((((.((..........)).)))))))).)).)))))))).)).((.......)).))))))..---------- ( -33.70)
>DroSec_CAF1 14733 85 + 1
CAUCUGGGAUUUCAGCAGGGGUUUCA-GCAGGGUUU------------UCAGCAGGGAUCUCGGCAGGAACUUCGGCAGGGACCUCAGCAGGAAUCUC----------
.....((((((((.((.(((((..(.-((.(((.((------------((.((.((....)).)).)))).))).)).)..))))).)).))))))))---------- ( -29.40)
>DroSim_CAF1 15083 85 + 1
CAGCGGGGAUCUCAGCAGGGCUUUCA-GCAGGGAUC------------UCGGCUGGGAUCUCGGCAGGGAUUUCAGCAGGAAUCUCGGCAGGGAUCUC----------
((((.((((((((.((..........-)).))))))------------)).))))(((((((.((.((((((((....)))))))).)).))))))).---------- ( -41.60)
>DroYak_CAF1 14499 97 + 1
CAGCUGGAAUUUCCAUUGGAGUUUCA-GCAGGGGUUUCAACAGGAGUUUCAGCUGGGGUUUCAGCUGGGAUUUCAGCUGGGAUUUCAGCAGGGGUUUC----------
..(((((((((((....)))))))))-)).((..((((....))))..)).((((..((..(((((((....)))))))..))..)))).........---------- ( -42.60)
>DroMoj_CAF1 16746 95 + 1
CGACUAGAGUUUCAGCUGGAGUUUUA-GCGGGAAU------------CUCAGCCUGGAUCUCUGCUGGAAUUUCUGCAGCGAUUUCAGCUGGAAUCUCAGCUUGGAUU
(((((.(((((((((((((((((...-((((((((------------..((((..((....))))))..))))))))...)))))))))))))).))))).))).... ( -40.30)
>DroAna_CAF1 14002 88 + 1
CGGCGGGAGCUUCGGCGGGAGUUUCUGGCUGGGAUUC----------CUCAGCAGGAGUCUCUGCUGGGACUUCGGCAAGGAUUUCAUUGGUGGCUUC----------
...((((((((((....))))))))))((((((....----------)))))).((((((..((((((....))))))..))))))............---------- ( -35.40)
>consensus
CAGCUGGAAUUUCAGCAGGAGUUUCA_GCAGGGAUU____________UCAGCAGGGAUCUCGGCAGGAACUUCGGCAGGGAUCUCAGCAGGAAUCUC__________
..((.((((((((.((.(((((((...((.((((((....................)))))).))..))))))).)).)))))))).))................... (-16.13 = -16.55 +   0.42)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:25:03 2006