Locus 3703

Sequence ID 2R_DroMel_CAF1
Location 12,285,943 – 12,286,060
Length 117
Max. P 0.838682
window6016 window6017

overview

Window 6

Location 12,285,943 – 12,286,040
Length 97
Sequences 5
Columns 102
Reading direction reverse
Mean pairwise identity 81.01
Mean single sequence MFE -26.78
Consensus MFE -15.16
Energy contribution -16.36
Covariance contribution 1.20
Combinations/Pair 1.21
Mean z-score -2.23
Structure conservation index 0.57
SVM decision value 0.74
SVM RNA-class probability 0.838682
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 12285943 97 - 20766785
UCAACAGCUCAAAUAUAGAACCGAGCUGGUGCAAUUGCUCCUAAACAAAGGACUGACCAAA-GCGGCGGCUUUAAU----AAGUCGCCGCAGCUUGCCAACC
....((((((............))))))(.((((..((((((......)))).........-((((((((((....----)))))))))).))))))).... ( -35.20)
>DroSec_CAF1 149572 94 - 1
UCACCAGCUUGAAUUUCGAGCCAAGUUGGUGCAGUUGCUCCUAAACAAAGGACUGACCAAA-GCGGCGGCUUUAAU----AAGUC---GCAGCUCGCCAACC
......(((((.....)))))...(((((((..(((..((((......))))..)))...(-((.(((((((....----)))))---)).)))))))))). ( -33.50)
>DroSim_CAF1 143314 94 - 1
UCACCAGCUUAAAUCUCGAGCCAAGCUGGUGCAGUUGCUCCUAAACAAAGGACUGACCAAA-GCGGCGGCUUUAAU----AAGUC---GCAGCUCGCCAACC
.(((((((((............)))))))))..(((((((((......))))........(-((.(((((((....----)))))---)).))).).)))). ( -31.00)
>DroEre_CAF1 155869 94 - 1
UCACCAUCUUCAGAUUCAAGCUAAGCCGGUGCAGUUGCUCCU-AACAAGGGACUGACCAAAACCCGAGUCUUUAAU----AAGUC---GCAGCUCUUCAACC
.((((..(((.((.......)))))..)))).((((((..((-....(((((((............)))))))...----.))..---))))))........ ( -17.30)
>DroYak_CAF1 151527 98 - 1
UCACUAUCUUCCAUUUCGAGCUCAGCGGGUGCAGUUGCCCUU-AACAAAGGACUGACCACAACCAACGCCUUUAAUACUUAAGUC---GCAGCUUUCCAACC
.................(((((..((((((.((((...((((-....)))))))))))...........(((........))).)---)))))))....... ( -16.90)
>consensus
UCACCAGCUUAAAUUUCGAGCCAAGCUGGUGCAGUUGCUCCUAAACAAAGGACUGACCAAA_GCGGCGGCUUUAAU____AAGUC___GCAGCUCGCCAACC
.(((((((((............))))))))).((((((((((......))))...............(((((........)))))...))))))........ (-15.16 = -16.36 +   1.20)

alignment

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secondary structure

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dotplot

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Window 7

Location 12,285,965 – 12,286,060
Length 95
Sequences 5
Columns 119
Reading direction reverse
Mean pairwise identity 73.43
Mean single sequence MFE -29.48
Consensus MFE -14.44
Energy contribution -14.76
Covariance contribution 0.32
Combinations/Pair 1.29
Mean z-score -1.73
Structure conservation index 0.49
SVM decision value 0.17
SVM RNA-class probability 0.616281
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 12285965 95 - 20766785
------------CCCCUGGGAGCAUA--------UGGGCUUCAACAGCUCAAAUAUAGAACCGAGCUGGUGCAAUUGCUCCUAAACAAAGGACUGACCAAA-GCGGCGGCUUUAAU---
------------....((((((((..--------...((.....((((((............))))))..))...))))))))....((((.(((.((...-..)))))))))...--- ( -29.00)
>DroSec_CAF1 149591 95 - 1
------------CCCCUGGGAGCAUA--------UGGGCUUCACCAGCUUGAAUUUCGAGCCAAGUUGGUGCAGUUGCUCCUAAACAAAGGACUGACCAAA-GCGGCGGCUUUAAU---
------------....((((((((..--------...(((.((((((((((..........)))))))))).)))))))))))....((((.(((.((...-..)))))))))...--- ( -34.20)
>DroSim_CAF1 143333 95 - 1
------------CCCCUGGGAGCAUA--------UGGGCUUCACCAGCUUAAAUCUCGAGCCAAGCUGGUGCAGUUGCUCCUAAACAAAGGACUGACCAAA-GCGGCGGCUUUAAU---
------------....((((((((..--------...(((.(((((((((............))))))))).)))))))))))....((((.(((.((...-..)))))))))...--- ( -33.10)
>DroEre_CAF1 155888 107 - 1
CACAUUCCCCCACCCUUGGGAAUAUA--------CGGGUUUCACCAUCUUCAGAUUCAAGCUAAGCCGGUGCAGUUGCUCCU-AACAAGGGACUGACCAAAACCCGAGUCUUUAAU---
...((((((........))))))...--------(((((((((((..(((.((.......)))))..))))(((((.((...-....)).)))))....)))))))..........--- ( -27.60)
>DroYak_CAF1 151547 118 - 1
CACAUUUCCCAGCCCUUGGGAAUAUAUGUAAGUAUGGGUUUCACUAUCUUCCAUUUCGAGCUCAGCGGGUGCAGUUGCCCUU-AACAAAGGACUGACCACAACCAACGCCUUUAAUACU
.(((((((((((...)))))))...)))).(((((((((((................)))))).((((((.((((...((((-....))))))))......)))..))).....))))) ( -23.49)
>consensus
____________CCCCUGGGAGCAUA________UGGGCUUCACCAGCUUAAAUUUCGAGCCAAGCUGGUGCAGUUGCUCCUAAACAAAGGACUGACCAAA_GCGGCGGCUUUAAU___
............((....))...............((((..(((((((((............))))))))).....)))).........((.....))..................... (-14.44 = -14.76 +   0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:02:16 2006