Locus 7221

Sequence ID 3L_DroMel_CAF1
Location 19,360,869 – 19,361,025
Length 156
Max. P 0.760865
window11731 window11732

overview

Window 1

Location 19,360,869 – 19,360,989
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 90.56
Mean single sequence MFE -24.17
Consensus MFE -17.72
Energy contribution -19.16
Covariance contribution 1.44
Combinations/Pair 1.08
Mean z-score -2.21
Structure conservation index 0.73
SVM decision value 0.50
SVM RNA-class probability 0.760865
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19360869 120 - 23771897
CCGUUAUGGCGUAAAUACGCCAUAAAUAUACCCUAAAACUGUGGCACUGUGGCACGUAGUAUUCAUUCAUACACCAUCUAAAAGCCGCAUUUUCCCACCAACUGCCAUUAAUCUCGGGUU
...(((((((((....)))))))))....((((.......((((((.((((((...(((..................)))...)))))).............)))))).......)))). ( -31.75)
>DroSec_CAF1 10670 113 - 1
CCGUUAUGGCGUAAAUACACCAUAAAUAUACCCUAAAACUGUGGCACUCAGGCACGUAGUAUUCAUUCAUACACCAUCUAAAAGCCGCAUUUUCCCACCAACUGCCAUUAAUC-------
...((((((.((....)).))))))..............((((((....(((...((.((((......))))))..)))....))))))........................------- ( -17.00)
>DroSim_CAF1 10922 120 - 1
CCGUUAUGGCGUAAAUACGCCAUAAAUAUACCCUAAAACUGUGGCACUCAGGCACGUAGUAUUCAUUCAUACACCAUCUAAAAGCCGCAUUUUCCCACCAACUGCCAUUAAUCUCGGGUU
...(((((((((....)))))))))....((((.......((((((....(((...(((..................)))...)))(........)......)))))).......)))). ( -27.51)
>DroYak_CAF1 14813 117 - 1
---CUAUUGCGAAAAUACGCCAUGGAUAUACCAUAACACUGUGCCACUCAGGCACGUAGUAUUCAUUCAUACACCAUCUAAAAGCCGCAUUUUCCCAUCAACUGCCAUUAAUCUCGGGUA
---....((((....(((...((((.....))))......(((((.....))))))))((((......)))).............))))....(((...................))).. ( -20.41)
>consensus
CCGUUAUGGCGUAAAUACGCCAUAAAUAUACCCUAAAACUGUGGCACUCAGGCACGUAGUAUUCAUUCAUACACCAUCUAAAAGCCGCAUUUUCCCACCAACUGCCAUUAAUCUCGGGUU
...((((((((......))))))))....((((.......((((((....(((...(((..................)))...)))(........)......)))))).......)))). (-17.72 = -19.16 +   1.44)

alignment

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secondary structure

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dotplot

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Window 2

Location 19,360,909 – 19,361,025
Length 116
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 81.64
Mean single sequence MFE -27.50
Consensus MFE -16.04
Energy contribution -16.22
Covariance contribution 0.19
Combinations/Pair 1.10
Mean z-score -2.18
Structure conservation index 0.58
SVM decision value 0.45
SVM RNA-class probability 0.741105
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19360909 116 - 23771897
CUUCUA----UCUGUAUUGAUGAAGUAAUCAAUGCAGGAGCCGUUAUGGCGUAAAUACGCCAUAAAUAUACCCUAAAACUGUGGCACUGUGGCACGUAGUAUUCAUUCAUACACCAUCUA
......----(((((((((((......))))))))))).(((((((((((((....))))))))).....(((.......).)).....)))).....((((......))))........ ( -32.20)
>DroSec_CAF1 10703 111 - 1
-----A----UCUGUAUUGAAGUAGUAAUCAAUGGUGGAGCCGUUAUGGCGUAAAUACACCAUAAAUAUACCCUAAAACUGUGGCACUCAGGCACGUAGUAUUCAUUCAUACACCAUCUA
-----.----.....(((((........)))))(((((.(((.((((((.((....)).)))))).....(((.......).))......))).....((((......)))).))))).. ( -21.70)
>DroSim_CAF1 10962 116 - 1
GUUCUA----UCUGUAUUGAAGUAGUAAUCAAUGCUGCAGCCGUUAUGGCGUAAAUACGCCAUAAAUAUACCCUAAAACUGUGGCACUCAGGCACGUAGUAUUCAUUCAUACACCAUCUA
......----...........(((..(((.((((((((.(((.(((((((((....))))))))).....(((.......).))......)))..)))))))).)))..)))........ ( -28.30)
>DroYak_CAF1 14853 102 - 1
GUGCUAUGUGUCUGUAUUGAAGUAG------------------CUAUUGCGAAAAUACGCCAUGGAUAUACCAUAACACUGUGCCACUCAGGCACGUAGUAUUCAUUCAUACACCAUCUA
((((((((((((((...((..(((.------------------((((.(((......))).))))...)))((((....)))).))..)))))))))))))).................. ( -27.80)
>consensus
GUUCUA____UCUGUAUUGAAGUAGUAAUCAAUGCUGGAGCCGUUAUGGCGUAAAUACGCCAUAAAUAUACCCUAAAACUGUGGCACUCAGGCACGUAGUAUUCAUUCAUACACCAUCUA
............(((((.(((......................((((((((......))))))))...............(((.(.....).)))..........))))))))....... (-16.04 = -16.22 +   0.19)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:41:17 2006