Locus 3360

Sequence ID 3R_DroMel_CAF1
Location 9,070,083 – 9,070,180
Length 97
Max. P 0.860897
window5407 window5408

overview

Window 7

Location 9,070,083 – 9,070,180
Length 97
Sequences 4
Columns 103
Reading direction forward
Mean pairwise identity 84.19
Mean single sequence MFE -24.61
Consensus MFE -18.90
Energy contribution -19.52
Covariance contribution 0.63
Combinations/Pair 1.04
Mean z-score -1.85
Structure conservation index 0.77
SVM decision value 0.67
SVM RNA-class probability 0.816559
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9070083 97 + 27905053
AGAUCUCCUCGCCGGAGAAGCCGGGGAAGUACUCGUAACUAGGUGGCGGAA----GGGAGGAAGGGAGGAGGAAAGGAAAA--GAGCGAGAGGAGAGUUCUUG
...(((((((.((((.....)))).......(((.(..((......(....----)......))..).)))..........--......)))))))....... ( -25.30)
>DroSec_CAF1 183807 91 + 1
AGAUCUCCUCGCCGGAGAAGCCGGGGAAGUACUCGUAACUGGGUGGCGGUG----GGGA------AAGGAGGAAAGGAGAA--GAGCGAGAGGCGAGUUCUUG
.....(((((((((.....(((.((.............)).)))..)))))----))))------..............((--((((.........)))))). ( -25.42)
>DroSim_CAF1 187623 91 + 1
AGAUCUCCUCGCCGGAGAAGCCGGGGAAGUACUCGUAACUGGGUGGCGGUG----GGGA------AAGGAGGAAAGGAGAA--GAGCGAGAGGAGAGUUCUUG
.....(((((((((.....(((.((.............)).)))..)))))----))))------..............((--((((.........)))))). ( -25.42)
>DroYak_CAF1 198513 97 + 1
AGAUCUCCUCGCCGGAGAAGCCGGGGAAGUACUCGUAACUGGGUGGCGAAAAAAAAGGA------AAGGAAAGAAGGAGAGGAGAGAGAGAAGAGCGAUGUUU
...(((((((.((((.....))))....(((((((....))))).))............------.............))))))).................. ( -22.30)
>consensus
AGAUCUCCUCGCCGGAGAAGCCGGGGAAGUACUCGUAACUGGGUGGCGGAA____GGGA______AAGGAGGAAAGGAGAA__GAGCGAGAGGAGAGUUCUUG
...(((((((.((((.....)))).)).(((((((....))))).))............................)))))......((((((.....)))))) (-18.90 = -19.52 +   0.63)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 9,070,083 – 9,070,180
Length 97
Sequences 4
Columns 103
Reading direction reverse
Mean pairwise identity 84.19
Mean single sequence MFE -16.73
Consensus MFE -12.59
Energy contribution -12.90
Covariance contribution 0.31
Combinations/Pair 1.07
Mean z-score -1.97
Structure conservation index 0.75
SVM decision value 0.83
SVM RNA-class probability 0.860897
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9070083 97 - 27905053
CAAGAACUCUCCUCUCGCUC--UUUUCCUUUCCUCCUCCCUUCCUCCC----UUCCGCCACCUAGUUACGAGUACUUCCCCGGCUUCUCCGGCGAGGAGAUCU
..(((..(((((((..((((--..........................----.................))))......((((.....)))).)))))))))) ( -17.53)
>DroSec_CAF1 183807 91 - 1
CAAGAACUCGCCUCUCGCUC--UUCUCCUUUCCUCCUU------UCCC----CACCGCCACCCAGUUACGAGUACUUCCCCGGCUUCUCCGGCGAGGAGAUCU
..((((...((.....))..--))))......((((((------.((.----....(((....(((.......))).....)))......)).)))))).... ( -15.00)
>DroSim_CAF1 187623 91 - 1
CAAGAACUCUCCUCUCGCUC--UUCUCCUUUCCUCCUU------UCCC----CACCGCCACCCAGUUACGAGUACUUCCCCGGCUUCUCCGGCGAGGAGAUCU
..(((..(((((((..((((--................------....----.................))))......((((.....)))).)))))))))) ( -17.69)
>DroYak_CAF1 198513 97 - 1
AAACAUCGCUCUUCUCUCUCUCCUCUCCUUCUUUCCUU------UCCUUUUUUUUCGCCACCCAGUUACGAGUACUUCCCCGGCUUCUCCGGCGAGGAGAUCU
..................(((((((.............------.........((((..((...))..)))).......((((.....)))).)))))))... ( -16.70)
>consensus
CAAGAACUCUCCUCUCGCUC__UUCUCCUUUCCUCCUU______UCCC____CACCGCCACCCAGUUACGAGUACUUCCCCGGCUUCUCCGGCGAGGAGAUCU
.......(((((((.................................................(((.......)))...((((.....)))).)))))))... (-12.59 = -12.90 +   0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:59:13 2006