Locus 3835

Sequence ID X_DroMel_CAF1
Location 10,179,518 – 10,179,621
Length 103
Max. P 0.958453
window6309 window6310

overview

Window 9

Location 10,179,518 – 10,179,621
Length 103
Sequences 3
Columns 116
Reading direction forward
Mean pairwise identity 78.92
Mean single sequence MFE -22.00
Consensus MFE -16.70
Energy contribution -17.70
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -2.02
Structure conservation index 0.76
SVM decision value 1.49
SVM RNA-class probability 0.958453
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10179518 103 + 22224390
------AUUAUAAUAAUGAUA-------ACAACUACGUGAUAAUCUUCCAUAGAAGACUCCACCGGACUCUUUUAAGCUGUAAAAAGGAAGUAGACUAGUAGACUAUCUGGUUGUU
------..............(-------((((((..........(((((.(((((((.(((...))).)))))))...(......)))))).(((.(((....))))))))))))) ( -18.40)
>DroSec_CAF1 8147 100 + 1
AAUUUAAUUAUAAUAAUGAUA-------ACAACUACGUGAUAAUCUUCCAUAGAAGACUCCGCAAGAGUCUUUUAAGCUAUUAAAAGCAUGUAG---------UUAUCUGGUUGUU
.........(((((...((((-------...(((((((............(((((((((.(....)))))))))).(((......)))))))))---------)))))..))))). ( -24.60)
>DroSim_CAF1 9289 107 + 1
AAUUUAAUUAUAAUAAUGACUACGUGAUACAACUACCUGAUAAUCUUCCAUAGAAGACUCCGCAAGAGUCUUUUAAGCUAUUAAAAGCAAGUAG---------UUUUCUGGUUGUU
..............((..((((...((...((((((..............(((((((((.(....)))))))))).(((......)))..))))---------)).))))))..)) ( -23.00)
>consensus
AAUUUAAUUAUAAUAAUGAUA_______ACAACUACGUGAUAAUCUUCCAUAGAAGACUCCGCAAGAGUCUUUUAAGCUAUUAAAAGCAAGUAG_________UUAUCUGGUUGUU
............................(((((((...((((........((((((((((.....)))))))))).(((......)))................))))))))))). (-16.70 = -17.70 +   1.00)

alignment

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secondary structure

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dotplot

Postscript

Window 0

Location 10,179,518 – 10,179,621
Length 103
Sequences 3
Columns 116
Reading direction reverse
Mean pairwise identity 78.92
Mean single sequence MFE -21.10
Consensus MFE -13.13
Energy contribution -14.13
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -1.65
Structure conservation index 0.62
SVM decision value -0.04
SVM RNA-class probability 0.512586
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10179518 103 - 22224390
AACAACCAGAUAGUCUACUAGUCUACUUCCUUUUUACAGCUUAAAAGAGUCCGGUGGAGUCUUCUAUGGAAGAUUAUCACGUAGUUGU-------UAUCAUUAUUAUAAU------
........(((((.((((...((((((..((((((........))))))...))))))((((((....))))))......))))...)-------))))...........------ ( -20.40)
>DroSec_CAF1 8147 100 - 1
AACAACCAGAUAA---------CUACAUGCUUUUAAUAGCUUAAAAGACUCUUGCGGAGUCUUCUAUGGAAGAUUAUCACGUAGUUGU-------UAUCAUUAUUAUAAUUAAAUU
........(((((---------(.((...(((((((....))))))).....((((.(((((((....)))))))....)))))).))-------))))................. ( -21.80)
>DroSim_CAF1 9289 107 - 1
AACAACCAGAAAA---------CUACUUGCUUUUAAUAGCUUAAAAGACUCUUGCGGAGUCUUCUAUGGAAGAUUAUCAGGUAGUUGUAUCACGUAGUCAUUAUUAUAAUUAAAUU
........((.((---------(((((((((((((.(((.....(((((((.....)))))))))))))))).....)))))))))...))......................... ( -21.10)
>consensus
AACAACCAGAUAA_________CUACUUGCUUUUAAUAGCUUAAAAGACUCUUGCGGAGUCUUCUAUGGAAGAUUAUCACGUAGUUGU_______UAUCAUUAUUAUAAUUAAAUU
........((((..........((((...(((((((....)))))))........(((((((((....))))))).))..))))...........))))................. (-13.13 = -14.13 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:09:53 2006