Locus 2009

Sequence ID 3L_DroMel_CAF1
Location 5,518,950 – 5,519,058
Length 108
Max. P 0.898642
window3145 window3146

overview

Window 5

Location 5,518,950 – 5,519,058
Length 108
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 80.99
Mean single sequence MFE -31.74
Consensus MFE -19.14
Energy contribution -19.62
Covariance contribution 0.48
Combinations/Pair 1.20
Mean z-score -2.70
Structure conservation index 0.60
SVM decision value 1.00
SVM RNA-class probability 0.898642
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5518950 108 + 23771897
UUCGUUGUCUUUUGGUCGUCAAUGUCGAGAAUUAGACGACGGUUCUGCUCAUCGAACUUAGCAGAGUAGACGCAUUGCAAGAAAAUGCAUGCGACGGCCUGGAAA---AAA------
.......(((...(((((((..(((((.........)))))..(((((((.............))))))).((((.(((......)))))))))))))).)))..---...------ ( -32.72)
>DroVir_CAF1 64640 110 + 1
UUCGUUGUCUUUUGAUCAUUGAUAUCGACAAUCAGACGUCGAUUCUCUGCAUCAAAUUUUGCAGAGUAAACGCAUUGCAACCAAAUGCAAGCGACGACCUGCAAA---UGAAG----
((((((....((((((((..((.((((((........))))))))..)).))))))...(((((.((...(((.(((((......))))))))...)))))))))---)))).---- ( -34.40)
>DroGri_CAF1 40827 110 + 1
UUCGUUGUCUUUUGAUCAUUGAUAUCGAGAAUUAAACGUCGAUUCUCUGAAUCAAAUUUAGCAGAGUAAACGCAUUGCAAUAAAAUGCAAGCGACGACCUGCAAA---UAAAU----
..................(((((.(((((((((.......))))))).))))))).....((((.((...(((.(((((......))))))))...))))))...---.....---- ( -26.90)
>DroWil_CAF1 60592 117 + 1
UUCGUUGUCUUUUGAUCAUUGAUAUCAAGAAUAAGACGACGAUUCUCUGCAUCAAAUUUGGCAGAGUAAACGCAUUGCAUUAAAAUGCAAGCGACGGCCUAAAAGGUGAAACAGAAA
.((((((((((....((.(((....)))))..))))))))))...((((..(((..((((((...((...(((.((((((....))))))))))).)))..)))..)))..)))).. ( -35.00)
>DroMoj_CAF1 77010 107 + 1
UUCGUUGUCUUUUUAUCAUUGAUAUCGACGAUCAAUCGUCGAUUCUCUGAAUCGAAUUUGGCAGAGUAAACGCAUUGCAACAAUAUGCAAGCGACGACCUGUGAA---UA-------
...............(((..((.((((((((....))))))))))..))).......((.((((.((...(((.(((((......))))))))...)))))).))---..------- ( -29.60)
>DroAna_CAF1 42934 110 + 1
UUCGUUGUCUUUUGGUCGUUAAUAUCGAGGAUAAGACGACGGUUCUCUGAAUCGAACUUGGCAGAGUAGACGCAUUGCAUCAAGAUGCAAGCGACGGCCUGGAAA---ACACA----
(((((((((((.(..(((.......)))..).))))))))(((((...))))))))((.(((...((...(((.((((((....))))))))))).))).))...---.....---- ( -31.80)
>consensus
UUCGUUGUCUUUUGAUCAUUGAUAUCGAGAAUAAGACGACGAUUCUCUGAAUCAAAUUUGGCAGAGUAAACGCAUUGCAACAAAAUGCAAGCGACGACCUGCAAA___AAA______
...(((((((((((....(((((...(((((((.......)))))))...)))))......))))).....((.(((((......)))))))))))))................... (-19.14 = -19.62 +   0.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 5,518,950 – 5,519,058
Length 108
Sequences 6
Columns 117
Reading direction reverse
Mean pairwise identity 80.99
Mean single sequence MFE -29.57
Consensus MFE -14.35
Energy contribution -14.30
Covariance contribution -0.05
Combinations/Pair 1.17
Mean z-score -2.35
Structure conservation index 0.49
SVM decision value -0.02
SVM RNA-class probability 0.524242
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5518950 108 - 23771897
------UUU---UUUCCAGGCCGUCGCAUGCAUUUUCUUGCAAUGCGUCUACUCUGCUAAGUUCGAUGAGCAGAACCGUCGUCUAAUUCUCGACAUUGACGACCAAAAGACAACGAA
------...---.........(((.(((((((......))).))))((((..((((((..........))))))...((((((..............))))))....)))).))).. ( -28.44)
>DroVir_CAF1 64640 110 - 1
----CUUCA---UUUGCAGGUCGUCGCUUGCAUUUGGUUGCAAUGCGUUUACUCUGCAAAAUUUGAUGCAGAGAAUCGACGUCUGAUUGUCGAUAUCAAUGAUCAAAAGACAACGAA
----..((.---(((((((((...((((((((......))))).)))...)).))))))).((((((.((..(((((((((......))))))).))..)))))))).......)). ( -35.40)
>DroGri_CAF1 40827 110 - 1
----AUUUA---UUUGCAGGUCGUCGCUUGCAUUUUAUUGCAAUGCGUUUACUCUGCUAAAUUUGAUUCAGAGAAUCGACGUUUAAUUCUCGAUAUCAAUGAUCAAAAGACAACGAA
----.....---...((((((...((((((((......))))).)))...)).))))....((((((.((..(((((((.(......).))))).))..)))))))).......... ( -26.50)
>DroWil_CAF1 60592 117 - 1
UUUCUGUUUCACCUUUUAGGCCGUCGCUUGCAUUUUAAUGCAAUGCGUUUACUCUGCCAAAUUUGAUGCAGAGAAUCGUCGUCUUAUUCUUGAUAUCAAUGAUCAAAAGACAACGAA
(((((((.(((...(((.(((.(.(((((((((....)))))).)))......).))))))..))).))))))).((((.(((((....(((((.......)))))))))).)))). ( -33.30)
>DroMoj_CAF1 77010 107 - 1
-------UA---UUCACAGGUCGUCGCUUGCAUAUUGUUGCAAUGCGUUUACUCUGCCAAAUUCGAUUCAGAGAAUCGACGAUUGAUCGUCGAUAUCAAUGAUAAAAAGACAACGAA
-------..---........((((.(((((((......))))).))((((.(((((............))))).((((((((....)))))))).............)))).)))). ( -27.30)
>DroAna_CAF1 42934 110 - 1
----UGUGU---UUUCCAGGCCGUCGCUUGCAUCUUGAUGCAAUGCGUCUACUCUGCCAAGUUCGAUUCAGAGAACCGUCGUCUUAUCCUCGAUAUUAACGACCAAAAGACAACGAA
----(((.(---(((...((..(.(((((((((....)))))).))).)..(((((............)))))..))(((((..((((...))))...))))).)))).)))..... ( -26.50)
>consensus
______UUA___UUUCCAGGCCGUCGCUUGCAUUUUGUUGCAAUGCGUUUACUCUGCCAAAUUCGAUGCAGAGAAUCGACGUCUAAUUCUCGAUAUCAAUGAUCAAAAGACAACGAA
.....................(((((((((((......))))).)))....(((((............))))).......((((.....(((.......))).....)))).))).. (-14.35 = -14.30 +  -0.05)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:22:23 2006