Locus 2293

Sequence ID 3L_DroMel_CAF1
Location 6,456,727 – 6,456,826
Length 99
Max. P 0.985042
window3542 window3543

overview

Window 2

Location 6,456,727 – 6,456,826
Length 99
Sequences 6
Columns 119
Reading direction forward
Mean pairwise identity 73.27
Mean single sequence MFE -30.67
Consensus MFE -20.53
Energy contribution -20.06
Covariance contribution -0.47
Combinations/Pair 1.21
Mean z-score -1.72
Structure conservation index 0.67
SVM decision value 1.55
SVM RNA-class probability 0.963528
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 6456727 99 + 23771897
UUUGCCGCAUUGGUGACAUGCACAAAAUGCAUGUAUAUGAGCACCUACGUACGAUAACUU----CGGUUCGGGGGUAAUAAUCGCCGCAGUCAAAACCAUUGC----------------
......(((.((((.(((((((.....)))))))........(((..((..(((.....)----))...))..)))...................)))).)))---------------- ( -26.00)
>DroVir_CAF1 269077 99 + 1
UCUCUGGCGUUUGUGACAUGCACAAAAUGCAUGUAUAUGAGCACCUACAUACGAUAAG--------GUU--GGGUUAAUAAUCGCCAGAGA-G-CAACGG--AGCCACAAGUU------
(((((((((((..(((((((((.....))))))).))..)))(((((...((......--------)))--))))........))))))))-(-(.....--.))........------ ( -32.30)
>DroPse_CAF1 248081 117 + 1
UUUGUGGCAUUGGUGACAUGCACAAAAUGCAUGUAUAUGAGCACCUACAUACGAUAACUUUUUGCAGUUUGGGGGUAAUAAUCGCCACAGCUAAAGCCACAGAGUCAUA--GCCAGAGC
((((((((...(((((((((((.....))))))).......))))....................(((((((.(((....))).))).))))...))))))))......--........ ( -31.51)
>DroGri_CAF1 200900 107 + 1
GCUCUGGCGUUUGUGACAUGCACAAAAUGCAUGUAUAUGAGCACCUACGGACGAUAAG--------GUU--GGGUUAAUAAUCGCCACAGUAACAAGCAA--ACAGUUAGAGUUACACA
((((((((((((((.(((((((.....)))))))...((.((..(....).......(--------(((--(......))))))))).........))))--)).))))))))...... ( -28.90)
>DroAna_CAF1 197623 101 + 1
UUUGUGGCAUUGGUGACAUGCACAAAAUGCAUGUAUAUGAGCACCUACGUACGAUAACUC--CGCGGUUCGGGGGUAAUAAUCGCCGCAGCCAAAGCCACGGC----------------
.(((((((...(((((((((((.....))))))).......))))...............--...(((((((.(((....))).))).))))...))))))).---------------- ( -33.81)
>DroPer_CAF1 255753 117 + 1
UUUGUGGCAUUGGUGACAUGCACAAAAUGCAUGUAUAUGAGCACCUACAUACGAUAACUUUUUGCAGUUUGGGGGUAAUAAUCGCCACAGCUAAAGCCACAGAGUCAUA--GCCAGAGC
((((((((...(((((((((((.....))))))).......))))....................(((((((.(((....))).))).))))...))))))))......--........ ( -31.51)
>consensus
UUUGUGGCAUUGGUGACAUGCACAAAAUGCAUGUAUAUGAGCACCUACAUACGAUAACUU____C_GUU_GGGGGUAAUAAUCGCCACAGCCAAAACCAC_GAG_CAUA__G_______
.(((((((.......(((((((.....))))))).........(((....((..............))...))).........)))))))............................. (-20.53 = -20.06 +  -0.47)

alignment

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secondary structure

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dotplot

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Window 3

Location 6,456,727 – 6,456,826
Length 99
Sequences 6
Columns 119
Reading direction reverse
Mean pairwise identity 73.27
Mean single sequence MFE -31.28
Consensus MFE -19.33
Energy contribution -19.08
Covariance contribution -0.25
Combinations/Pair 1.21
Mean z-score -2.13
Structure conservation index 0.62
SVM decision value 1.99
SVM RNA-class probability 0.985042
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 6456727 99 - 23771897
----------------GCAAUGGUUUUGACUGCGGCGAUUAUUACCCCCGAACCG----AAGUUAUCGUACGUAGGUGCUCAUAUACAUGCAUUUUGUGCAUGUCACCAAUGCGGCAAA
----------------(((.((((.....((((((((((.(((............----.))).))))).)))))..........((((((((...)))))))).)))).)))...... ( -26.22)
>DroVir_CAF1 269077 99 - 1
------AACUUGUGGCU--CCGUUG-C-UCUCUGGCGAUUAUUAACCC--AAC--------CUUAUCGUAUGUAGGUGCUCAUAUACAUGCAUUUUGUGCAUGUCACAAACGCCAGAGA
------.....(..((.--..))..-)-(((((((((...........--...--------......(((((((.((....)).)))))))..((((((.....))))))))))))))) ( -29.50)
>DroPse_CAF1 248081 117 - 1
GCUCUGGC--UAUGACUCUGUGGCUUUAGCUGUGGCGAUUAUUACCCCCAAACUGCAAAAAGUUAUCGUAUGUAGGUGCUCAUAUACAUGCAUUUUGUGCAUGUCACCAAUGCCACAAA
(((..(((--(((......))))))..)))(((((((.............((((......))))..........((((.......((((((((...))))))))))))..))))))).. ( -35.61)
>DroGri_CAF1 200900 107 - 1
UGUGUAACUCUAACUGU--UUGCUUGUUACUGUGGCGAUUAUUAACCC--AAC--------CUUAUCGUCCGUAGGUGCUCAUAUACAUGCAUUUUGUGCAUGUCACAAACGCCAGAGC
.......((((...(((--(((...((..((((((((((.........--...--------...)))).))))))..))......((((((((...))))))))..))))))..)))). ( -24.06)
>DroAna_CAF1 197623 101 - 1
----------------GCCGUGGCUUUGGCUGCGGCGAUUAUUACCCCCGAACCGCG--GAGUUAUCGUACGUAGGUGCUCAUAUACAUGCAUUUUGUGCAUGUCACCAAUGCCACAAA
----------------...(((((.((((((((((((((....((..(((.....))--).)).))))).)))))..........((((((((...))))))))..)))).)))))... ( -36.70)
>DroPer_CAF1 255753 117 - 1
GCUCUGGC--UAUGACUCUGUGGCUUUAGCUGUGGCGAUUAUUACCCCCAAACUGCAAAAAGUUAUCGUAUGUAGGUGCUCAUAUACAUGCAUUUUGUGCAUGUCACCAAUGCCACAAA
(((..(((--(((......))))))..)))(((((((.............((((......))))..........((((.......((((((((...))))))))))))..))))))).. ( -35.61)
>consensus
_______C__UAUG_CUC_GUGGCUUUAGCUGUGGCGAUUAUUACCCCC_AAC_G____AAGUUAUCGUACGUAGGUGCUCAUAUACAUGCAUUUUGUGCAUGUCACCAAUGCCACAAA
..............................(((((((..............................((((....))))......((((((((...))))))))......))))))).. (-19.33 = -19.08 +  -0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:28:51 2006