Locus 878

Sequence ID 2L_DroMel_CAF1
Location 2,501,413 – 2,501,507
Length 94
Max. P 0.743138
window1421 window1422

overview

Window 1

Location 2,501,413 – 2,501,507
Length 94
Sequences 6
Columns 97
Reading direction forward
Mean pairwise identity 82.44
Mean single sequence MFE -19.03
Consensus MFE -11.75
Energy contribution -12.45
Covariance contribution 0.70
Combinations/Pair 1.11
Mean z-score -1.90
Structure conservation index 0.62
SVM decision value -0.00
SVM RNA-class probability 0.532996
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2501413 94 + 22407834
CCCCAACUGCACUGUACAUAAAUCAAUGACAAUCAAAAUUCAUUUC-UUUGCCCUGAUUUAUUGCUUUUGUUUGAUUUUUGGUGUGUGUGUGGGG--
(((((...(((((((.(((......))))))(((((((.(((....-...((...........)).......))).)))))))))))...)))))-- ( -21.64)
>DroVir_CAF1 118214 84 + 1
CAUCAACUGCAAUGCACAUAAAUCAAUGACAAUCAAAAUUCAUUUCGUUUGCGUUGAUUUAUUGCGUUUGUUUGAUUUCG-------------UACA
.(((((..((((((((.(((((((((((.(((.(.(((....))).).)))))))))))))))))).)))))))))....-------------.... ( -20.20)
>DroPse_CAF1 93796 84 + 1
CCCCAACUGCAAUGCGCAUAAAUCAAUGACAAUCAAAAUUCAUUUCGUUUGCGUUGAUUUAUUGCUUUUGUUUGAUUAAAGG-----------GG--
((((....((((.(((.(((((((((((.(((.(.(((....))).).)))))))))))))))))..)))).........))-----------))-- ( -20.92)
>DroGri_CAF1 116853 86 + 1
CUUCAACUGCAAUGCACAUAAAUCAAUGACAAUCAAAAUUCAUUUCGCCUGUGUUGAUUUAUUGCGUUUGUUUGAUUUGCCA-----------GGCA
..........((((((.((((((((((.(((..(.(((....))).)..)))))))))))))))))))((((((......))-----------)))) ( -17.00)
>DroMoj_CAF1 124426 85 + 1
CCUCAACUGCAAUAGACAUAAAUCAAUGACAAUCAAAAUUCAUUUCGCCUGCGUUGAUUUAUUGCGUUUGUUUGAUUUGGC------------UACA
..((((...(((((((((((((((((((.((..(.(((....))).)..)))))))))))))...))))).)))..)))).------------.... ( -13.50)
>DroPer_CAF1 91327 84 + 1
CCCCAACUGCAAUGCGCAUAAAUCAAUGACAAUCAAAAUUCAUUUCGUUUGCGUUGAUUUAUUGCUUUUGUUUGAUUAAAGG-----------GG--
((((....((((.(((.(((((((((((.(((.(.(((....))).).)))))))))))))))))..)))).........))-----------))-- ( -20.92)
>consensus
CCCCAACUGCAAUGCACAUAAAUCAAUGACAAUCAAAAUUCAUUUCGUUUGCGUUGAUUUAUUGCGUUUGUUUGAUUUAAGG___________GG__
...(((..(((..(((.(((((((((((.(((.(.(((....))).).)))))))))))))))))...))))))....................... (-11.75 = -12.45 +   0.70)

alignment

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secondary structure

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dotplot

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Window 2

Location 2,501,413 – 2,501,507
Length 94
Sequences 6
Columns 97
Reading direction reverse
Mean pairwise identity 82.44
Mean single sequence MFE -18.18
Consensus MFE -14.44
Energy contribution -13.80
Covariance contribution -0.64
Combinations/Pair 1.19
Mean z-score -1.73
Structure conservation index 0.79
SVM decision value 0.45
SVM RNA-class probability 0.743138
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2501413 94 - 22407834
--CCCCACACACACACCAAAAAUCAAACAAAAGCAAUAAAUCAGGGCAAA-GAAAUGAAUUUUGAUUGUCAUUGAUUUAUGUACAGUGCAGUUGGGG
--(((((.((.........................((((((((((((((.-((((....))))..))))).)))))))))((.....)).))))))) ( -19.20)
>DroVir_CAF1 118214 84 - 1
UGUA-------------CGAAAUCAAACAAACGCAAUAAAUCAACGCAAACGAAAUGAAUUUUGAUUGUCAUUGAUUUAUGUGCAUUGCAGUUGAUG
....-------------....(((((...((.((((((((((((.((((.(((((....))))).))))..))))))))).))).))....))))). ( -18.10)
>DroPse_CAF1 93796 84 - 1
--CC-----------CCUUUAAUCAAACAAAAGCAAUAAAUCAACGCAAACGAAAUGAAUUUUGAUUGUCAUUGAUUUAUGCGCAUUGCAGUUGGGG
--((-----------((...............(((.((((((((.((((.(((((....))))).))))..)))))))))))((...))....)))) ( -20.40)
>DroGri_CAF1 116853 86 - 1
UGCC-----------UGGCAAAUCAAACAAACGCAAUAAAUCAACACAGGCGAAAUGAAUUUUGAUUGUCAUUGAUUUAUGUGCAUUGCAGUUGAAG
(((.-----------..)))..((((...((.((((((((((((.((((.(((((....))))).))))..))))))))).))).))....)))).. ( -16.60)
>DroMoj_CAF1 124426 85 - 1
UGUA------------GCCAAAUCAAACAAACGCAAUAAAUCAACGCAGGCGAAAUGAAUUUUGAUUGUCAUUGAUUUAUGUCUAUUGCAGUUGAGG
....------------........................(((((((((..((.(((((((.((.....))..))))))).))..)))).))))).. ( -14.40)
>DroPer_CAF1 91327 84 - 1
--CC-----------CCUUUAAUCAAACAAAAGCAAUAAAUCAACGCAAACGAAAUGAAUUUUGAUUGUCAUUGAUUUAUGCGCAUUGCAGUUGGGG
--((-----------((...............(((.((((((((.((((.(((((....))))).))))..)))))))))))((...))....)))) ( -20.40)
>consensus
__CC___________CCCCAAAUCAAACAAAAGCAAUAAAUCAACGCAAACGAAAUGAAUUUUGAUUGUCAUUGAUUUAUGUGCAUUGCAGUUGAGG
......................((((.(((..(((.((((((((.((((.(((((....))))).))))..)))))))))))...)))...)))).. (-14.44 = -13.80 +  -0.64)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:47:47 2006