Locus 6488

Sequence ID	3R_DroMel_CAF1
Location	17,083,026 – 17,083,160
Length	134
Max. P	0.926808

overview

Window 7

Location	17,083,026 – 17,083,121
Length	95
Sequences	6
Columns	110
Reading direction	forward
Mean pairwise identity	80.47
Mean single sequence MFE	-20.29
Consensus MFE	-12.31
Energy contribution	-13.07
Covariance contribution	0.75
Combinations/Pair	1.10
Mean z-score	-2.01
Structure conservation index	0.61
SVM decision value	0.51
SVM RNA-class probability	0.763817
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17083026 95 + 27905053
AACUGGCCAAUAUGGUGUGCGCAUAAUGAAUUUAUCAAAUUAAUCAAAAUGGCGCUACUCAGGGUGAUCCUACACCCCCAUCCC---------------ACCCACUAAGC
...(((.....((((.((((.(((..(((..(((......))))))..)))))))......(((((......)))))))))...---------------..)))...... ( -19.70)
>DroSec_CAF1 34589 95 + 1
AACUGGCCAAUAUGGUGUGCGCAUAAUGAAUUUAUCAAAUUAAUCAAAAUGGCGCUACUCAGGGUGAUCCUACACCCCCAUCCC---------------ACCCACUAAGC
...(((.....((((.((((.(((..(((..(((......))))))..)))))))......(((((......)))))))))...---------------..)))...... ( -19.70)
>DroSim_CAF1 34532 95 + 1
AACUGGCCAAUAUGGUGUGCGCAUAAUGAAUUUAUCAAAUUAAUCAAAAUGGCGCUACUCAGGGUGAUCCUACACCCCCAUCCC---------------ACCCACUAAGC
...(((.....((((.((((.(((..(((..(((......))))))..)))))))......(((((......)))))))))...---------------..)))...... ( -19.70)
>DroEre_CAF1 35176 95 + 1
AACGGGCCAAUAUGGUGUGUGCAUAAUGAAUUUAUCAAAUUAAUCAAAAUGGCGCUACUAAGGGGGAUCCUACACCCCCAUCCC---------------ACCCACUAAGC
...(((......(((((.((((....(((..(((......)))))).....))))))))).(((((........))))).....---------------.)))....... ( -24.10)
>DroWil_CAF1 56585 73 + 1
AGCACGCCAAUAUGGUGUGCACAUAAUGAAUUUAUCAAAUUAAUCAAAAUGGCACUGCAAAGAGUGUCCUUAC-------------------------------------
.(((((((.....)))))))..............................((((((......)))))).....------------------------------------- ( -19.50)
>DroYak_CAF1 40982 110 + 1
AACUGGCCAAUAUGGUGUGCGCAUAAUGAAUUUAUCAAAUUAAUCAAAAUGACGCUACUCGGGGUGAUCCCACACCCUUAUCCCCAUCCUACAACCCACCCCCACUAAAC
............(((((.((((((..(((..(((......))))))..))).))).....((((((..............................)))))))))))... ( -19.01)
>consensus
AACUGGCCAAUAUGGUGUGCGCAUAAUGAAUUUAUCAAAUUAAUCAAAAUGGCGCUACUCAGGGUGAUCCUACACCCCCAUCCC_______________ACCCACUAAGC
.....(((.....)))((((.(((..(((..(((......))))))..)))))))......(((((......)))))................................. (-12.31 = -13.07 +   0.75)

alignment

secondary structure

dotplot

Window 8

Location	17,083,061 – 17,083,160
Length	99
Sequences	5
Columns	114
Reading direction	forward
Mean pairwise identity	90.48
Mean single sequence MFE	-21.82
Consensus MFE	-20.06
Energy contribution	-20.10
Covariance contribution	0.04
Combinations/Pair	1.06
Mean z-score	-1.50
Structure conservation index	0.92
SVM decision value	1.18
SVM RNA-class probability	0.926808
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17083061 99 + 27905053
CAAAUUAAUCAAAAUGGCGCUACUCAGGGUGAUCCUACACCCCCAUCCC---------------ACCCACUAAGCCGCAAACAAACACCGGAAGCCUGUGUUUAUGCGUCCCGG
...............(((((......(((((......))))).......---------------..................((((((.((...)).))))))..))))).... ( -20.80)
>DroSec_CAF1 34624 99 + 1
CAAAUUAAUCAAAAUGGCGCUACUCAGGGUGAUCCUACACCCCCAUCCC---------------ACCCACUAAGCCGCAAACAAACACCGGAAGCCUGUGUUUAUGCGUCCCGG
...............(((((......(((((......))))).......---------------..................((((((.((...)).))))))..))))).... ( -20.80)
>DroSim_CAF1 34567 99 + 1
CAAAUUAAUCAAAAUGGCGCUACUCAGGGUGAUCCUACACCCCCAUCCC---------------ACCCACUAAGCCGCAAACAAACACCGGAAGCCUGUGUUUAUGCGUCCCGG
...............(((((......(((((......))))).......---------------..................((((((.((...)).))))))..))))).... ( -20.80)
>DroEre_CAF1 35211 99 + 1
CAAAUUAAUCAAAAUGGCGCUACUAAGGGGGAUCCUACACCCCCAUCCC---------------ACCCACUAAGCCGCAAACAAACACCGGAAGCCUGUGUUUAUGCGUCCCGG
...............(((((......(((((........))))).....---------------..................((((((.((...)).))))))..))))).... ( -23.80)
>DroYak_CAF1 41017 114 + 1
CAAAUUAAUCAAAAUGACGCUACUCGGGGUGAUCCCACACCCUUAUCCCCAUCCUACAACCCACCCCCACUAAACAGCAAACAAACACCGGAAGCCUGUGUUUAUGCGUCCCGG
...............(((((.....((((((..............................))))))...............((((((.((...)).))))))..))))).... ( -22.91)
>consensus
CAAAUUAAUCAAAAUGGCGCUACUCAGGGUGAUCCUACACCCCCAUCCC_______________ACCCACUAAGCCGCAAACAAACACCGGAAGCCUGUGUUUAUGCGUCCCGG
...............(((((......(((((......)))))........................................((((((.((...)).))))))..))))).... (-20.06 = -20.10 +   0.04)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:22:36 2006