Locus 4581

Sequence ID X_DroMel_CAF1
Location 12,014,931 – 12,015,030
Length 99
Max. P 0.751448
window7535 window7536

overview

Window 5

Location 12,014,931 – 12,015,030
Length 99
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 78.51
Mean single sequence MFE -27.28
Consensus MFE -10.29
Energy contribution -10.52
Covariance contribution 0.22
Combinations/Pair 1.22
Mean z-score -2.68
Structure conservation index 0.38
SVM decision value 0.48
SVM RNA-class probability 0.751448
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12014931 99 + 22224390
AUUGCAAUUCCCUUUUUUUUUUGGGCCAAAUUAUGACGGCCUUGGCC------AAGCGUCUG------GC---------CCAUCGAAGGCUGUUCAUCAAAACUCAAUAGCCAAAAAAAA
.............(((((((((((((((....(((..(((....)))------...))).))------))---------))).....(((((((...........))))))))))))))) ( -27.50)
>DroSec_CAF1 48393 93 + 1
AUUGCAAUUCCCUUU----UUUGGGCCAAAUUAUGACGGCCUUGGCC------AAGAGUCUG------GC---------CCAUCGAAGGCUGUUCAUCAAAACUCAAUAGCCAAAAAA--
............(((----..(((((((.(((.....(((....)))------...))).))------))---------)))..)))(((((((...........)))))))......-- ( -27.30)
>DroSim_CAF1 47582 93 + 1
AUUGCAAUUCCCUUU----UUUGGGCCAAAUUAUGACGGCCUUGGCC------AAGAGUCUG------GC---------CCAUCGAAGGCUGUUCAUCAAAACUCAAUAGCCAAAAAA--
............(((----..(((((((.(((.....(((....)))------...))).))------))---------)))..)))(((((((...........)))))))......-- ( -27.30)
>DroEre_CAF1 45488 92 + 1
AUUGCAAUUCCCUUU---UUUUGGGCCAAAUUAUGACGGCCUUGGCC------AAGAGUCUG------GC---------CCAUCGAAGGCUGUUCAUAAAAACUCAAUAGCCAAA--A--
...((....(((...---....))).....(((((((((((((((((------(......))------))---------).....))))))).))))))..........))....--.-- ( -27.40)
>DroYak_CAF1 46590 100 + 1
AUUGCAAGCCCCUUUU--UUUUGGGCCAAAUUAUGAUGGCCUUGGCC------AAGAGUCUGUUCUGUGG---------CCAUCGAAGGCUGUUCAUCAAAACUCAAUAGCCAAAA-A--
.......((((.....--....)))).......((((((((..(..(------(......))..)...))---------))))))..(((((((...........)))))))....-.-- ( -28.30)
>DroPer_CAF1 153237 106 + 1
UUCGCGAUUCCCUUA------UGGCCAAAGUUUUGAUGGACAUGGCCUUGUGAAAGAAUUCC------GCAAGCCAGAGCUCAAGAACUCUGUCUAUAAAAACUCAAUAAGCAACAAG--
...((.....((...------.))....((((((.(((((((((((.(((((.........)------))))))))(((........)))))))))).))))))......))......-- ( -25.90)
>consensus
AUUGCAAUUCCCUUU____UUUGGGCCAAAUUAUGACGGCCUUGGCC______AAGAGUCUG______GC_________CCAUCGAAGGCUGUUCAUCAAAACUCAAUAGCCAAAAAA__
...((....(((..........))).........((((((....)))..........)))........)).................(((((((...........)))))))........ (-10.29 = -10.52 +   0.22)

alignment

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secondary structure

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dotplot

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Window 6

Location 12,014,931 – 12,015,030
Length 99
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 78.51
Mean single sequence MFE -29.47
Consensus MFE -13.63
Energy contribution -13.55
Covariance contribution -0.08
Combinations/Pair 1.29
Mean z-score -2.24
Structure conservation index 0.46
SVM decision value 0.33
SVM RNA-class probability 0.690061
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12014931 99 - 22224390
UUUUUUUUGGCUAUUGAGUUUUGAUGAACAGCCUUCGAUGG---------GC------CAGACGCUU------GGCCAAGGCCGUCAUAAUUUGGCCCAAAAAAAAAAGGGAAUUGCAAU
((((((((((...(..((((.(((((....(((((.....(---------((------(((....))------)))))))))))))).))))..).)))))))))).............. ( -29.40)
>DroSec_CAF1 48393 93 - 1
--UUUUUUGGCUAUUGAGUUUUGAUGAACAGCCUUCGAUGG---------GC------CAGACUCUU------GGCCAAGGCCGUCAUAAUUUGGCCCAAA----AAAGGGAAUUGCAAU
--.......((.(((..((((....))))..((((...(((---------((------((((....(------(((....))))......)))))))))..----.)))).))).))... ( -28.50)
>DroSim_CAF1 47582 93 - 1
--UUUUUUGGCUAUUGAGUUUUGAUGAACAGCCUUCGAUGG---------GC------CAGACUCUU------GGCCAAGGCCGUCAUAAUUUGGCCCAAA----AAAGGGAAUUGCAAU
--.......((.(((..((((....))))..((((...(((---------((------((((....(------(((....))))......)))))))))..----.)))).))).))... ( -28.50)
>DroEre_CAF1 45488 92 - 1
--U--UUUGGCUAUUGAGUUUUUAUGAACAGCCUUCGAUGG---------GC------CAGACUCUU------GGCCAAGGCCGUCAUAAUUUGGCCCAAAA---AAAGGGAAUUGCAAU
--.--....((.(((..((((....))))..((((...(((---------((------((((....(------(((....))))......)))))))))...---.)))).))).))... ( -27.80)
>DroYak_CAF1 46590 100 - 1
--U-UUUUGGCUAUUGAGUUUUGAUGAACAGCCUUCGAUGG---------CCACAGAACAGACUCUU------GGCCAAGGCCAUCAUAAUUUGGCCCAAAA--AAAAGGGGCUUGCAAU
--.-.....((....(((((.(((((....((((....(((---------(((.(((......))))------)))))))))))))).)))))(((((....--.....))))).))... ( -30.90)
>DroPer_CAF1 153237 106 - 1
--CUUGUUGCUUAUUGAGUUUUUAUAGACAGAGUUCUUGAGCUCUGGCUUGC------GGAAUUCUUUCACAAGGCCAUGUCCAUCAAAACUUUGGCCA------UAAGGGAAUCGCGAA
--(((((.(((....(((((((.((.(((((((((....)))))((((((..------.(((....)))...)))))))))).)).))))))).))).)------))))........... ( -31.70)
>consensus
__UUUUUUGGCUAUUGAGUUUUGAUGAACAGCCUUCGAUGG_________GC______CAGACUCUU______GGCCAAGGCCGUCAUAAUUUGGCCCAAA____AAAGGGAAUUGCAAU
......((((((.....((((....))))..((......))................................))))))(((((........)))))....................... (-13.63 = -13.55 +  -0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:28:43 2006