Locus 8161

Sequence ID 3R_DroMel_CAF1
Location 21,955,473 – 21,955,574
Length 101
Max. P 0.965875
window13122 window13123

overview

Window 2

Location 21,955,473 – 21,955,574
Length 101
Sequences 5
Columns 104
Reading direction forward
Mean pairwise identity 81.41
Mean single sequence MFE -30.42
Consensus MFE -13.82
Energy contribution -16.74
Covariance contribution 2.92
Combinations/Pair 1.18
Mean z-score -3.04
Structure conservation index 0.45
SVM decision value 1.59
SVM RNA-class probability 0.965875
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21955473 101 + 27905053
GAUUUGACGUAUUUAUUCGCAUUGCUCGGCAUGUUGCGGCAACAUUUUAGGCAACAUCCAAGAAAUAUUGCCAGCUUCUGGG---CUGAGCGUGUAAAUUACAU
........(((...(((..(((.(((((((..(..(((((((.(((((.((......))..))))).))))).))..)...)---)))))))))..)))))).. ( -29.00)
>DroSec_CAF1 61270 101 + 1
GAUUUAACGUAUUUAUUCGCAUUGCUCGGCAUGUUGCGGCAACAUUUUGGGCAACAUGCAAAAAAUAUUGCCAGCUUCUGGG---CUGAGCGUGUAAAUUACAU
........(((...(((..(((.(((((((..(..(((((((.(((((..((.....))..))))).))))).))..)...)---)))))))))..)))))).. ( -33.00)
>DroSim_CAF1 70694 101 + 1
GAUUUAACGUAUUUAUUCGCAUUGCUCGGCAUGUUGCGGCAACAUUUUGGGCAACAUGCAAAAAAUAUUGCCAGCUUCUGGG---CUGAGCGUGUAAAUUAUAU
........((((..(((..(((.(((((((..(..(((((((.(((((..((.....))..))))).))))).))..)...)---)))))))))..))).)))) ( -32.60)
>DroEre_CAF1 63345 100 + 1
GAUUUUUCGUAUUUAUUAGCGUUGCUUGGAAUGUUGCUGCAACAUUCUGGGCAACAUGAAAAAUAUAUUGCUAGCUUAUGGG---CUGAGCAUGUAAAUUAC-U
.(((((((((........))((((((..((((((((...))))))))..))))))..)))))))....((((((((....))---)).))))..........-. ( -34.40)
>DroYak_CAF1 62900 88 + 1
GAUUUUUCGUAUAC----------------AUGUUCCGGCAACAUUUCAGGCAACAUUUAAAAACCAUUGCCAGCUUAUGGGCGGCUGAGCAUGUAAGUUACAU
........((((((----------------((((((.(((.........(((((.............))))).(((....))).))))))))))))...))).. ( -23.12)
>consensus
GAUUUAACGUAUUUAUUCGCAUUGCUCGGCAUGUUGCGGCAACAUUUUGGGCAACAUGCAAAAAAUAUUGCCAGCUUCUGGG___CUGAGCGUGUAAAUUACAU
........((((((((.(((.((((((((.((((((...)))))).))))))))................(((.....)))........))).))))).))).. (-13.82 = -16.74 +   2.92)

alignment

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secondary structure

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dotplot

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Window 3

Location 21,955,473 – 21,955,574
Length 101
Sequences 5
Columns 104
Reading direction reverse
Mean pairwise identity 81.41
Mean single sequence MFE -23.80
Consensus MFE -11.72
Energy contribution -13.16
Covariance contribution 1.44
Combinations/Pair 1.06
Mean z-score -2.19
Structure conservation index 0.49
SVM decision value 0.22
SVM RNA-class probability 0.641496
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21955473 101 - 27905053
AUGUAAUUUACACGCUCAG---CCCAGAAGCUGGCAAUAUUUCUUGGAUGUUGCCUAAAAUGUUGCCGCAACAUGCCGAGCAAUGCGAAUAAAUACGUCAAAUC
((((((((..((.((((.(---(...(..((.((((((((((...((......))..))))))))))))..)..)).))))..))..)))...)))))...... ( -25.60)
>DroSec_CAF1 61270 101 - 1
AUGUAAUUUACACGCUCAG---CCCAGAAGCUGGCAAUAUUUUUUGCAUGUUGCCCAAAAUGUUGCCGCAACAUGCCGAGCAAUGCGAAUAAAUACGUUAAAUC
((((((((..((.((((.(---(...(..((.(((((((((((..((.....))..)))))))))))))..)..)).))))..))..)))...)))))...... ( -27.10)
>DroSim_CAF1 70694 101 - 1
AUAUAAUUUACACGCUCAG---CCCAGAAGCUGGCAAUAUUUUUUGCAUGUUGCCCAAAAUGUUGCCGCAACAUGCCGAGCAAUGCGAAUAAAUACGUUAAAUC
.....(((..((.((((.(---(...(..((.(((((((((((..((.....))..)))))))))))))..)..)).))))..))..))).............. ( -25.90)
>DroEre_CAF1 63345 100 - 1
A-GUAAUUUACAUGCUCAG---CCCAUAAGCUAGCAAUAUAUUUUUCAUGUUGCCCAGAAUGUUGCAGCAACAUUCCAAGCAACGCUAAUAAAUACGAAAAAUC
.-(((.((((..((((.((---(......))))))).............(((((...((((((((...))))))))...))))).....)))))))........ ( -22.60)
>DroYak_CAF1 62900 88 - 1
AUGUAACUUACAUGCUCAGCCGCCCAUAAGCUGGCAAUGGUUUUUAAAUGUUGCCUGAAAUGUUGCCGGAACAU----------------GUAUACGAAAAAUC
.((((...((((((.((.(((((......)).)))..((((.....((((((......)))))))))))).)))----------------)))))))....... ( -17.80)
>consensus
AUGUAAUUUACACGCUCAG___CCCAGAAGCUGGCAAUAUUUUUUGCAUGUUGCCCAAAAUGUUGCCGCAACAUGCCGAGCAAUGCGAAUAAAUACGUAAAAUC
.............((((...............((((((((.......))))))))....((((((...))))))...))))....................... (-11.72 = -13.16 +   1.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:03:58 2006