Locus 4224

Sequence ID 2R_DroMel_CAF1
Location 13,889,122 – 13,889,270
Length 148
Max. P 0.834410
window6784 window6785

overview

Window 4

Location 13,889,122 – 13,889,233
Length 111
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 81.41
Mean single sequence MFE -29.52
Consensus MFE -21.62
Energy contribution -21.62
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.99
Structure conservation index 0.73
SVM decision value 0.73
SVM RNA-class probability 0.834410
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 13889122 111 + 20766785
---UCUUUCUGCUCGGG---UAUUUUCCUUUUGGUAGCUUUCUGAACGGAAGCGGAUAUUUUCAACGCGCCAUUGUUAUUUUUUGAGUGCGGGAAAUUGUUCGCCCCAGCUUUUCUU
---.......(((.(((---....((((.((..(.......)..)).))))(((((((.((((..(((((((..(.....)..)).))))).)))).)))))))))))))....... ( -33.20)
>DroPse_CAF1 171627 109 + 1
-------UCUGCUCUGGCGCUGUUUUCCUUUCGGUAGCUUUCGGAACGGAAGCGGAUAUUUUCAACGCGCCAUUGUUAUUUUUUGAGUGCGGGAAAUUGUUCGUCUCAUCUCGCAU-
-------...((..((((((.((((((.((((((......)))))).))))))(((....)))...))))))..))..........((((((((...((.......))))))))))- ( -32.50)
>DroSim_CAF1 178017 97 + 1
--------------------UAUUUUCCUUUUGGUAGCUUUCUGAACGGAAGCGGAUAUUUUCAACGCGCCAUUGUUAUUUUUUGAGUGCGGGAAAUUGUUCGCCCCAGCUUUUCUU
--------------------....((((.((..(.......)..)).))))(((((((.((((..(((((((..(.....)..)).))))).)))).)))))))............. ( -25.30)
>DroWil_CAF1 213130 105 + 1
CUUUUAUUUUUUUU--G---UGUU---UUUUUGGUAGCUUUCCAAACGGAAGCGGAUAUUUUCAACGCGCCAUUGUUAUUUUUUGAGUGCGGGAAAUUGUUCGUCGCAACGUU----
............((--(---((((---..(((((.......)))))..)).(((((((.((((..(((((((..(.....)..)).))))).)))).))))))))))))....---- ( -24.40)
>DroAna_CAF1 181191 107 + 1
---UCUUUCGGCUUGGG---UAUUUUCCUUUUGGUAGCUUUCGGAACGGAAGCGGAUAUUUUCAACGCGCCAUUGUUAUUUUUUGAGUGCGGGAAAUUGUUCAUCCCACCUCU----
---......((..((..---((.(((((........(((((((...)))))))............(((((((..(.....)..)).)))))))))).))..))..))......---- ( -29.20)
>DroPer_CAF1 169050 109 + 1
-------UCUGCUCUGGCGCUGUUUUCCUUUCGGUAGCUUUCGGAACGGAAGCGGAUAUUUUCAACGCGCCAUUGUUAUUUUUUGAGUGCGGGAAAUUGUUCGUCUCAUCUCGCAU-
-------...((..((((((.((((((.((((((......)))))).))))))(((....)))...))))))..))..........((((((((...((.......))))))))))- ( -32.50)
>consensus
_______UCUGCUC_GG___UAUUUUCCUUUUGGUAGCUUUCGGAACGGAAGCGGAUAUUUUCAACGCGCCAUUGUUAUUUUUUGAGUGCGGGAAAUUGUUCGUCCCAGCUCU__U_
....................................((((((.....))))))(((((.((((..(((((((..(.....)..)).))))).)))).)))))............... (-21.62 = -21.62 +  -0.00)

alignment

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secondary structure

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dotplot

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Window 5

Location 13,889,156 – 13,889,270
Length 114
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 85.32
Mean single sequence MFE -22.58
Consensus MFE -20.88
Energy contribution -20.60
Covariance contribution -0.28
Combinations/Pair 1.10
Mean z-score -1.26
Structure conservation index 0.92
SVM decision value 0.04
SVM RNA-class probability 0.555036
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 13889156 114 + 20766785
UCUGAACGGAAGCGGAUAUUUUCAACGCGCCAUUGUUAUUUUUUGAGUGCGGGAAAUUGUUCGCCCCAGCUUUUCUUCUCCUCCUUUCCCCUUUC---UUCAUUCCCCUCUCUCCUC
.......((..(((((((.((((..(((((((..(.....)..)).))))).)))).))))))).))............................---................... ( -21.30)
>DroPse_CAF1 171660 100 + 1
UCGGAACGGAAGCGGAUAUUUUCAACGCGCCAUUGUUAUUUUUUGAGUGCGGGAAAUUGUUCGUCUCAUCUCGCAU---CCCCAUU--------C---CCCC---CCCUCUCCUCUC
..((((.(((.(((((((.((((..(((((((..(.....)..)).))))).)))).)))))(........))).)---))...))--------)---)...---............ ( -22.10)
>DroSec_CAF1 174995 114 + 1
UCUGAACGGAAGCGGAUAUUUUCAACGCGCCAUUGUUAUUUUUUGAGUGCGGGAAAUUGUUCGCCCCAGCUUUUCUUCUCCUCCUUUCGCCUUUC---UCCACUUCCUUCUCUCCUC
...(((.(((((((((((.((((..(((((((..(.....)..)).))))).)))).)))))))....((..................)).....---.....)))))))....... ( -23.17)
>DroSim_CAF1 178037 114 + 1
UCUGAACGGAAGCGGAUAUUUUCAACGCGCCAUUGUUAUUUUUUGAGUGCGGGAAAUUGUUCGCCCCAGCUUUUCUUCUCCUCCUUUCGCCUUUC---UCCACUCCCUUCUCUCCUC
...(((.(((.(((((((.((((..(((((((..(.....)..)).))))).)))).)))))))....((..................)).....---.....))).)))....... ( -22.87)
>DroEre_CAF1 175845 107 + 1
UCUGAACGGAAGCGGAUAUUUUCAACGCGCCAUUGUUAUUUUUUGAGUGCGGGAAAUUGUUCGCCCCAGCUUUUCUUCUCGUCCUUUGCCCCU----------UCCCCUCGCUGCUC
...((..(((((((((((.((((..(((((((..(.....)..)).))))).)))).)))))))....((.................))...)----------)))..))....... ( -23.03)
>DroYak_CAF1 180589 117 + 1
UCUGAACGGAAGCGGAUAUUUUCAACGCGCCAUUGUUAUUUUUUGAGUGCGGGAAAUUGUUCGCCCCAGCUUUUCUUCUCGUCCUCUCUCCUUUCCAUUCCAUUCCCUGCGCUUCUC
.......(((((((((((.((((..(((((((..(.....)..)).))))).)))).)))))((....))........................................)))))). ( -23.00)
>consensus
UCUGAACGGAAGCGGAUAUUUUCAACGCGCCAUUGUUAUUUUUUGAGUGCGGGAAAUUGUUCGCCCCAGCUUUUCUUCUCCUCCUUUCCCCUUUC___UCCA_UCCCCUCUCUCCUC
.......((..(((((((.((((..(((((((..(.....)..)).))))).)))).))))))).)).................................................. (-20.88 = -20.60 +  -0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:14:40 2006