Locus 7405

Sequence ID X_DroMel_CAF1
Location 18,457,669 – 18,457,810
Length 141
Max. P 0.827371
window12137 window12138

overview

Window 7

Location 18,457,669 – 18,457,778
Length 109
Sequences 5
Columns 116
Reading direction reverse
Mean pairwise identity 63.08
Mean single sequence MFE -29.64
Consensus MFE -9.34
Energy contribution -10.42
Covariance contribution 1.08
Combinations/Pair 1.32
Mean z-score -2.14
Structure conservation index 0.32
SVM decision value 0.07
SVM RNA-class probability 0.570896
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18457669 109 - 22224390
CAUACCUAUGUAUGUAU-GUAUGUAAGUGCACGCAUAAUUGCGUGUCUAUGGAUGCCAAAGAUCUUCUCGAGGAG----AGAGGAGCG--GCAUUUGGAUGGGGAAUCGGAUUGGG
....((((..((((..(-((((....)))))..))))(((.(.((((((..((((((.....(((((((.....)----))))))..)--))))))))))).).))).....)))) ( -34.30)
>DroPse_CAF1 5483 94 - 1
-----CGAUGUCUUUGUAGUAUG-----GCAUAUGUAGUU-C----------GUAUAAGAGAUCUUCUAGGGGAAAUACAGAAGAGUGCAUCAUC-CGAUGGGGCAUCCCAUCCGA
-----.(((((((((...(((((-----((.......).)-)----------)))).)))).((((((.(........)))))))..))))).((-.((((((....)))))).)) ( -24.00)
>DroSec_CAF1 1434 97 - 1
AAU------------AU-GUAUGUAGGUGCAUGCAUAAUUGCGUGUCUAUGGAUGCCAGAGAUCUUCUCGAGAAG----GGAGGAGCG--GCACGUGGAUGGGGAAUCGGAUUGGG
..(------------((-((((((....)))))))))(((.(.((((((((..((((.(...(((((((.....)----)))))).))--))))))))))).).)))......... ( -33.10)
>DroSim_CAF1 1730 97 - 1
AAU------------AU-GUAUGUAGGUGCAUGCAUAAUUGCGUGUCUAUGGAUGCCAGAGAUCUUCUCGAGAAG----GGAGGAGCG--GCAUGUGGAUGGGGAAUCGGAUUGGG
..(------------((-((((((....)))))))))(((.(.(((((((..(((((.(...(((((((.....)----)))))).))--))))))))))).).)))......... ( -32.30)
>DroPer_CAF1 6563 94 - 1
-----CGAUGUCUUUGUAGUAUG-----UCAUAUGUAGUU-C----------GUAUAAGAGAUCUUCUAGGGGAAAUACAGAAGAGUGCAUCAUG-CGAUGGGGCAUCGCAUCCGA
-----(((((((((....(((((-----....(((((.((-(----------......))).((((((.(........))))))).)))))))))-)...)))))))))....... ( -24.50)
>consensus
_AU__C_AUGU_U_UAU_GUAUGUA_GUGCAUGCAUAAUUGCGUGUCUAUGGAUGCCAGAGAUCUUCUCGAGGAG____AGAGGAGCG__GCAUGUGGAUGGGGAAUCGGAUUGGG
..................((((.((...(((((((....)))))))...)).))))......((((((...........))))))............(((.....)))........ ( -9.34 = -10.42 +   1.08)

alignment

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secondary structure

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dotplot

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Window 8

Location 18,457,703 – 18,457,810
Length 107
Sequences 3
Columns 113
Reading direction reverse
Mean pairwise identity 85.05
Mean single sequence MFE -31.80
Consensus MFE -24.24
Energy contribution -24.13
Covariance contribution -0.11
Combinations/Pair 1.07
Mean z-score -2.29
Structure conservation index 0.76
SVM decision value 0.70
SVM RNA-class probability 0.827371
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18457703 107 - 22224390
C------UCCAUACGCAAUGUGCCUGGGAACACAUGUACAUACCUAUGUAUGUAUGUAUGUAAGUGCACGCAUAAUUGCGUGUCUAUGGAUGCCAAAGAUCUUCUCGAGGAGA
(------(((.((((((((((((.((.(.(((.((((((((((....)))))))))).)))...).)).)))).))))))))(((.(((...))).))).........)))). ( -36.10)
>DroSec_CAF1 1468 95 - 1
C------UCCAUACGCAAUGUGCCUGGGAACACAUGUAAAU------------AUGUAUGUAGGUGCAUGCAUAAUUGCGUGUCUAUGGAUGCCAGAGAUCUUCUCGAGAAGG
.------((((((.((((((((........)))))((((.(------------((((((((....))))))))).)))).))).)))))).....(((.....)))....... ( -28.60)
>DroSim_CAF1 1764 101 - 1
CUCCAUCUCCAUACGCAAUGUGCCUGGGAACACAUGUAAAU------------AUGUAUGUAGGUGCAUGCAUAAUUGCGUGUCUAUGGAUGCCAGAGAUCUUCUCGAGAAGG
(((....((((((.((((((((........)))))((((.(------------((((((((....))))))))).)))).))).)))))).....(((.....)))))).... ( -30.70)
>consensus
C______UCCAUACGCAAUGUGCCUGGGAACACAUGUAAAU____________AUGUAUGUAGGUGCAUGCAUAAUUGCGUGUCUAUGGAUGCCAGAGAUCUUCUCGAGAAGG
.......((((((((((((.(((.((......)).)))...............((((((((....)))))))).)))))))....))))).........(((((....))))) (-24.24 = -24.13 +  -0.11)

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 12:38:03 2006