Locus 5680

Sequence ID 3R_DroMel_CAF1
Location 14,903,706 – 14,903,801
Length 95
Max. P 0.935557
window9285 window9286

overview

Window 5

Location 14,903,706 – 14,903,801
Length 95
Sequences 3
Columns 95
Reading direction forward
Mean pairwise identity 89.82
Mean single sequence MFE -26.27
Consensus MFE -23.06
Energy contribution -23.39
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -1.73
Structure conservation index 0.88
SVM decision value 0.15
SVM RNA-class probability 0.605581
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14903706 95 + 27905053
GUCAGCCAAGCUGGCCAAGCUGUACACGCUGGCAACCUGUAACGUGCAACGUGCAAUAAGCAACUUGCAACAUUGUAGCGAUUGCCACUGAAUAC
((((((...))))))...........((.(((((((((((((..(((((..(((.....)))..)))))...)))))).).)))))).))..... ( -26.50)
>DroSec_CAF1 31123 95 + 1
GUCAGCCAAGCUGGCCAAGUUGUGCAUGCUGGCAACCUGUAACGUGCAACUUGCAACAAGCAACUUGCAACAUUGUAGCGAUUGCCACUGAAUAC
((((((...))))))(((((((..(.(((.(....)..)))..)..)))))))......((((.((((.((...)).)))))))).......... ( -27.30)
>DroSim_CAF1 31031 86 + 1
GUCAGCCAAGCU---------GUACAUGCUGGCAACCUGUAACGUGCAACUUGCAACCAGCAACUUGCAACAUUGUAGCGAUUGCCACUGAAUAC
.((((...(((.---------......)))((((((((((((..(((((.((((.....)))).)))))...)))))).).))))).)))).... ( -25.00)
>consensus
GUCAGCCAAGCUGGCCAAG_UGUACAUGCUGGCAACCUGUAACGUGCAACUUGCAACAAGCAACUUGCAACAUUGUAGCGAUUGCCACUGAAUAC
.((((...(((................)))((((((((((((..(((((.((((.....)))).)))))...)))))).).))))).)))).... (-23.06 = -23.39 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 14,903,706 – 14,903,801
Length 95
Sequences 3
Columns 95
Reading direction reverse
Mean pairwise identity 89.82
Mean single sequence MFE -32.57
Consensus MFE -29.29
Energy contribution -29.62
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -2.42
Structure conservation index 0.90
SVM decision value 1.25
SVM RNA-class probability 0.935557
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14903706 95 - 27905053
GUAUUCAGUGGCAAUCGCUACAAUGUUGCAAGUUGCUUAUUGCACGUUGCACGUUACAGGUUGCCAGCGUGUACAGCUUGGCCAGCUUGGCUGAC
((((.(..((((((((.....(((((.((((..(((.....)))..)))))))))...))))))))..).))))...(..(((.....)))..). ( -32.20)
>DroSec_CAF1 31123 95 - 1
GUAUUCAGUGGCAAUCGCUACAAUGUUGCAAGUUGCUUGUUGCAAGUUGCACGUUACAGGUUGCCAGCAUGCACAACUUGGCCAGCUUGGCUGAC
((((.(..((((((((.....(((((.((((.((((.....)))).)))))))))...))))))))).)))).....(..(((.....)))..). ( -34.00)
>DroSim_CAF1 31031 86 - 1
GUAUUCAGUGGCAAUCGCUACAAUGUUGCAAGUUGCUGGUUGCAAGUUGCACGUUACAGGUUGCCAGCAUGUAC---------AGCUUGGCUGAC
....((((((((((((.....(((((.((((.((((.....)))).)))))))))...)))))))(((......---------.)))..))))). ( -31.50)
>consensus
GUAUUCAGUGGCAAUCGCUACAAUGUUGCAAGUUGCUUGUUGCAAGUUGCACGUUACAGGUUGCCAGCAUGUACA_CUUGGCCAGCUUGGCUGAC
....((((((((((((.....(((((.((((.((((.....)))).)))))))))...)))))))(((................)))..))))). (-29.29 = -29.62 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:01:35 2006