Locus 5962

Sequence ID	2L_DroMel_CAF1
Location	16,781,597 – 16,781,757
Length	160
Max. P	0.995502

overview

Window 5

Location	16,781,597 – 16,781,717
Length	120
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	95.11
Mean single sequence MFE	-47.93
Consensus MFE	-44.02
Energy contribution	-44.27
Covariance contribution	0.25
Combinations/Pair	1.08
Mean z-score	-2.04
Structure conservation index	0.92
SVM decision value	2.58
SVM RNA-class probability	0.995502
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16781597 120 - 22407834
UCUUCUUCAUGCGCAGGGCCUCAGCCUUGCCCUUGGCCUCGGCUUCGAGGGAAGCCUGCAUGGAGUCGAGGGCACGCUGGUGGUUCUUGCGGGUGUUCUCGAACUCCUCCUCCUUCUCCU
((.....(((.((((((((((((((..((((((((((..(((((((....)))))).....)..)))))))))).))))).)).))))))).))).....)).................. ( -50.40)
>DroPse_CAF1 4695 120 - 1
UCUUCUUCAUGCGCAGGGCCUCAGCCUUGCCCUUGGCCUCAGCCUCGAGGGAGGCUUGCAUCGAGUCCAAGGCGCGCUGGUGGUUCUUGCGGGUGUUCUCGAACUCCUCUUCCUUCUCCU
((.....(((.((((((((((((((...((((((((.(((((((((....))))))......))).)))))).))))))).)).))))))).))).....)).................. ( -46.80)
>DroSim_CAF1 1834 120 - 1
UCUUCUUCAUGCGCAGGGCCUCAGCCUUGCCCUUGGCCUCGGCUUCGAGGGAAGCCUGCAUGGAGUCGAGGGCACGCUGGUGGUUCUUGCGGGUGUUCUCGAACUCCUCCUCCUUCUCCU
((.....(((.((((((((((((((..((((((((((..(((((((....)))))).....)..)))))))))).))))).)).))))))).))).....)).................. ( -50.40)
>DroYak_CAF1 4082 120 - 1
UCUUCUUCAUGCGCAGGGCCUCAGCCUUACCCUUGGCCUCGGCUUCAAGGGAAGCCUGCAUGGAGUCGAGGGCACGCUGGUGGUUCUUGCGGGUGUUCUCGAACUCCUCCUCCUUCUCCU
....(((((((((((((((....))))).((((((((....))..))))))..))..))))))))((((((((((.(((..........))))))))))))).................. ( -45.20)
>DroAna_CAF1 1829 120 - 1
UCUUCUUCAUGCGCAGGGCCUCAGCCUUGCCCUUGGCCUCAGCCUCAAGGGAAGCCUGCAUGGAGUCGAGGGCGCGCUGGUGGUUCUUGCGGGUGUUCUCGAACUCCUCCUCCUUCUCCU
((.....(((.((((((((((((((..((((((((((..((((....(((....))))).))..)))))))))).))))).)).))))))).))).....)).................. ( -48.00)
>DroPer_CAF1 4567 120 - 1
UCUUCUUCAUGCGCAGGGCCUCAGCCUUGCCCUUGGCCUCAGCCUCGAGGGAGGCUUGCAUCGAGUCCAAGGCGCGCUGGUGGUUCUUGCGGGUGUUCUCGAACUCCUCUUCCUUCUCCU
((.....(((.((((((((((((((...((((((((.(((((((((....))))))......))).)))))).))))))).)).))))))).))).....)).................. ( -46.80)
>consensus
UCUUCUUCAUGCGCAGGGCCUCAGCCUUGCCCUUGGCCUCAGCCUCGAGGGAAGCCUGCAUGGAGUCGAGGGCACGCUGGUGGUUCUUGCGGGUGUUCUCGAACUCCUCCUCCUUCUCCU
((.....(((.((((((((((((((..((((((((((.((((((((....))))))......)))))))))))).))))).)).))))))).))).....)).................. (-44.02 = -44.27 +   0.25)

alignment

secondary structure

dotplot

Window 6

Location	16,781,637 – 16,781,757
Length	120
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	91.44
Mean single sequence MFE	-47.17
Consensus MFE	-40.68
Energy contribution	-40.52
Covariance contribution	-0.16
Combinations/Pair	1.24
Mean z-score	-1.68
Structure conservation index	0.86
SVM decision value	0.48
SVM RNA-class probability	0.751939
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16781637 120 - 22407834
UCCAGAGCAAUCUCAAGCUCGUUGAUGUCAGCCUCCAGCUUCUUCUUCAUGCGCAGGGCCUCAGCCUUGCCCUUGGCCUCGGCUUCGAGGGAAGCCUGCAUGGAGUCGAGGGCACGCUGG
....((((........))))((((....))))..(((((.............(((((((....)))))))...((.((((((((((((((....)))...))))))))))).)).))))) ( -51.20)
>DroVir_CAF1 1915 120 - 1
UCCAGAGCAAUUUCCAAUUCGUUGAUGUCGGCUUCCAACUUCUUCUUCAUGCGCAGCGCCUCAGCCUUGCCCUUGGCUUCGGCUUCGAGGGAGGCUUGCAUGGAGUCGAGAGCGCGCUGG
.((((.((............((((....)))).......((((((((((((((....(((((..(((((.....(((....))).)))))))))).)))))))))..))))).)).)))) ( -42.30)
>DroPse_CAF1 4735 120 - 1
UCCAGAGCAAUUUCCAGCUCGUUAAUGUCAGCCUCCAGCUUCUUCUUCAUGCGCAGGGCCUCAGCCUUGCCCUUGGCCUCAGCCUCGAGGGAGGCUUGCAUCGAGUCCAAGGCGCGCUGG
.((((.((..(((...(((((...((((.(((((((.((...........))(((((((....))))))).((((((....)))..)))))))))).)))))))))..)))..)).)))) ( -46.70)
>DroWil_CAF1 1331 120 - 1
UCCAGAGCAAUCUCCAAUUCGUUGAUGUCGGCUUCCAACUUCUUCUUCAUGCGCAGGGCCUCAGCCUUGCCCUUGGCUUCGGCUUCGAGGGAGGCCUGCAUGGAGUCGAGAGCGCGCUGG
.((((.((..((((......((((....))))............((((((((...(((((((..(((((.....(((....))).))))))))))))))))))))..))))..)).)))) ( -49.00)
>DroMoj_CAF1 1898 120 - 1
UCCAGAGCAAUCUCCAACUCGUUGAUGUCGGCUUCCAACUUCUUCUUCAUGCGGAGCGCCUCAGCCUUGCCCUUGGCUUCGGCUUCGAGGGAGGCUUGCAUGGAGUCGAGAGCGCGCUGG
.((((.((..((((..((((((((....))))...............(((((((((...)))(((((..((((((((....))..))))))))))))))))))))).))))..)).)))) ( -46.70)
>DroPer_CAF1 4607 120 - 1
UCCAGAGCAAUCUCCAGCUCGUUAAUGUCAGCCUCCAGCUUCUUCUUCAUGCGCAGGGCCUCAGCCUUGCCCUUGGCCUCAGCCUCGAGGGAGGCUUGCAUCGAGUCCAAGGCGCGCUGG
.((((.((..(((...(((((...((((.(((((((.((...........))(((((((....))))))).((((((....)))..)))))))))).)))))))))...))).)).)))) ( -47.10)
>consensus
UCCAGAGCAAUCUCCAACUCGUUGAUGUCAGCCUCCAACUUCUUCUUCAUGCGCAGGGCCUCAGCCUUGCCCUUGGCCUCGGCUUCGAGGGAGGCUUGCAUGGAGUCGAGAGCGCGCUGG
.((((.((..((((..((((....((((.(((((((................(((((((....))))))).((((((....)))..)))))))))).)))).)))).))))..)).)))) (-40.68 = -40.52 +  -0.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:57:40 2006