Locus 7552

Sequence ID 3R_DroMel_CAF1
Location 20,233,985 – 20,234,081
Length 96
Max. P 0.995368
window12188 window12189

overview

Window 8

Location 20,233,985 – 20,234,081
Length 96
Sequences 3
Columns 104
Reading direction forward
Mean pairwise identity 73.68
Mean single sequence MFE -29.33
Consensus MFE -21.86
Energy contribution -21.20
Covariance contribution -0.66
Combinations/Pair 1.17
Mean z-score -1.87
Structure conservation index 0.75
SVM decision value 2.57
SVM RNA-class probability 0.995368
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20233985 96 + 27905053
----CGACAAGCCCACACACAGAUAUACAUAUAUACAU----AUGUAUGUGUAUAGAGCCGGACAACGCGGCGUAUGAGUGUCAUCGCUGUAGUCCUGGCAGUU
----.(((..............((((((((((((....----))))))))))))...(((((((...((((((.(((.....))))))))).)))).))).))) ( -32.90)
>DroSim_CAF1 49033 100 + 1
----CGACAAGCCCACACACAGAUAUAAGUAUAUAUAUGUAUGUGUAUGUGUAUAGAGCCGGACAACGCGGCGUAUGAGUGUCAUCGCUGUGGUCCUGGCAGUU
----.(((.....((((.(((.(((((.((....)).))))).))).))))......(((((((..(((((((.(((.....)))))))))))))).))).))) ( -34.10)
>DroAna_CAF1 47705 90 + 1
AGAGAGACAAACACACACUCUG-----CACAUAAAC------ACGAUAGAGGAGAGAGCCGGACAAGGCGGCGUAUGAGUGUCAUCGUUGCGGU---GGCAGUU
...((((((..((.((.((((.-----(........------........).)))).((((.......)))))).))..)))).)).((((...---.)))).. ( -20.99)
>consensus
____CGACAAGCCCACACACAGAUAUACAUAUAUACAU____AUGUAUGUGUAUAGAGCCGGACAACGCGGCGUAUGAGUGUCAUCGCUGUGGUCCUGGCAGUU
.....(((.........((((..........................))))......(((((((...((((((.(((.....))))))))).)))).))).))) (-21.86 = -21.20 +  -0.66)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 20,233,985 – 20,234,081
Length 96
Sequences 3
Columns 104
Reading direction reverse
Mean pairwise identity 73.68
Mean single sequence MFE -28.13
Consensus MFE -16.01
Energy contribution -17.24
Covariance contribution 1.23
Combinations/Pair 1.12
Mean z-score -2.24
Structure conservation index 0.57
SVM decision value 1.82
SVM RNA-class probability 0.978679
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20233985 96 - 27905053
AACUGCCAGGACUACAGCGAUGACACUCAUACGCCGCGUUGUCCGGCUCUAUACACAUACAU----AUGUAUAUAUGUAUAUCUGUGUGUGGGCUUGUCG----
....(((.((((.((.((((((.....))).)))...)).)))))))(((((((((((((((----((....)))))))....)))))))))).......---- ( -31.70)
>DroSim_CAF1 49033 100 - 1
AACUGCCAGGACCACAGCGAUGACACUCAUACGCCGCGUUGUCCGGCUCUAUACACAUACACAUACAUAUAUAUACUUAUAUCUGUGUGUGGGCUUGUCG----
....(((.((((.((.((((((.....))).)))...)).))))))).......(((..((((((((.(((((....))))).))))))))....)))..---- ( -30.90)
>DroAna_CAF1 47705 90 - 1
AACUGCC---ACCGCAACGAUGACACUCAUACGCCGCCUUGUCCGGCUCUCUCCUCUAUCGU------GUUUAUGUG-----CAGAGUGUGUGUUUGUCUCUCU
...(((.---...)))..((.((((..(((((((.(((......)))...........((.(------((......)-----)))))))))))..))))))... ( -21.80)
>consensus
AACUGCCAGGACCACAGCGAUGACACUCAUACGCCGCGUUGUCCGGCUCUAUACACAUACAU____AUGUAUAUAUGUAUAUCUGUGUGUGGGCUUGUCG____
....(((.((((.((.((((((.....))).)))...)).)))))))((((((((((..........................))))))))))........... (-16.01 = -17.24 +   1.23)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:48:41 2006