Locus 6067

Sequence ID 3R_DroMel_CAF1
Location 15,934,065 – 15,934,195
Length 130
Max. P 0.998617
window9897 window9898

overview

Window 7

Location 15,934,065 – 15,934,180
Length 115
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 92.29
Mean single sequence MFE -26.34
Consensus MFE -21.53
Energy contribution -21.57
Covariance contribution 0.03
Combinations/Pair 1.20
Mean z-score -2.11
Structure conservation index 0.82
SVM decision value 0.25
SVM RNA-class probability 0.654170
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15934065 115 - 27905053
CUCGAAAGCAGGACAGCCACUGGCGAAUGGGGAUCAAAUGAUUUAUUCAUAAAUUCCGCAUACGCUAAGGGCAC-----AAAAAAUGCUUGUAAGCCGCAAAUAAUUAUUUACAACAAGU
.......((.((.(.(((..(((((.(((.(((....((((.....))))....))).))).)))))..)))((-----((.......))))..)))))..................... ( -28.60)
>DroSec_CAF1 63705 115 - 1
CUCGAAAGCAGGACAGCGACUGGCGAAUGGGGAUCAAAUGAUUUAUUCAUAAAUUCCGCAUACGCUAAGGGCAC-----AAAAAAUGCUUGUAAGCCGCAAAUAAUUAUUUACAACAAGU
(((....).))....((...(((((.(((.(((....((((.....))))....))).))).)))))..(((((-----((.......))))..)))))..................... ( -26.10)
>DroSim_CAF1 41220 115 - 1
CUCGAAAGCAGGACAGCCACUGGCGAAUGGGGAUCAAAUGAUUUAUUCAUAAAUUCCGCAUACGCUAAGGGCAC-----AAAAAAUGCUUGUAAGCCGCAAAUAAUUAUUUACAACAAGU
.......((.((.(.(((..(((((.(((.(((....((((.....))))....))).))).)))))..)))((-----((.......))))..)))))..................... ( -28.60)
>DroEre_CAF1 40610 115 - 1
CUCGAAAGCAGUACAGCCACUGGCGAAUGCGGAUCAAAUGAUUUAUUCAUAAAUUCAGCAUACGCUAAGGGCAC-----AAAAAAUGCUUGUAAGCCGCAAAUAAUUAUUUACAACAAGU
.......((......(((..(((((.((((.((....((((.....))))....)).)))).)))))..)))..-----.......(((....))).))..................... ( -25.90)
>DroYak_CAF1 58562 115 - 1
CUCGAAAGCAGAACAGCCACUGGCGAAUGCGGAUCAAAUGAUUUAUUCAUAAAUUCCGCAUACGCUAAGGGCAC-----AAAAAAUGCUUGUAAGCCGCCAAUAAUUAUUUACAACAAGU
(((....).))....(((..(((((.(((((((....((((.....))))....))))))).)))))..)))..-----.......((((((......................)))))) ( -32.35)
>DroAna_CAF1 34909 116 - 1
CCCGAAAG----GCAGUCACAGGUGAAUCCGGAUCAAAUGAUUUAUUCAUAAAUUCUGCAUACACUAAGAGCACGCAAAAAAAAAUACUUGUAAGCCGCAAAUAAUUAUUCACAAUAAGU
...(((..----((((......((((((..(((((....))))))))))).....)))).........(.((..((((..........))))..)))...........)))......... ( -16.50)
>consensus
CUCGAAAGCAGGACAGCCACUGGCGAAUGCGGAUCAAAUGAUUUAUUCAUAAAUUCCGCAUACGCUAAGGGCAC_____AAAAAAUGCUUGUAAGCCGCAAAUAAUUAUUUACAACAAGU
..(....).......(((..(((((.(((.(((....((((.....))))....))).))).)))))..)))..............((((((......................)))))) (-21.53 = -21.57 +   0.03)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 15,934,105 – 15,934,195
Length 90
Sequences 5
Columns 90
Reading direction reverse
Mean pairwise identity 97.67
Mean single sequence MFE -27.16
Consensus MFE -24.20
Energy contribution -24.60
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -2.70
Structure conservation index 0.89
SVM decision value 3.16
SVM RNA-class probability 0.998617
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15934105 90 - 27905053
CGAAGAGGUCAUCCACUCGAAAGCAGGACAGCCACUGGCGAAUGGGGAUCAAAUGAUUUAUUCAUAAAUUCCGCAUACGCUAAGGGCACA
...........(((...(....)..)))..(((..(((((.(((.(((....((((.....))))....))).))).)))))..)))... ( -27.50)
>DroSec_CAF1 63745 90 - 1
CGAAGAGGUCAUCCACUCGAAAGCAGGACAGCGACUGGCGAAUGGGGAUCAAAUGAUUUAUUCAUAAAUUCCGCAUACGCUAAGGGCACA
.......(((.(((...(....)..))).......(((((.(((.(((....((((.....))))....))).))).)))))..)))... ( -23.00)
>DroSim_CAF1 41260 90 - 1
CGAAGAGGUCAUCCACUCGAAAGCAGGACAGCCACUGGCGAAUGGGGAUCAAAUGAUUUAUUCAUAAAUUCCGCAUACGCUAAGGGCACA
...........(((...(....)..)))..(((..(((((.(((.(((....((((.....))))....))).))).)))))..)))... ( -27.50)
>DroEre_CAF1 40650 90 - 1
CGAAGAGGUCAUCCACUCGAAAGCAGUACAGCCACUGGCGAAUGCGGAUCAAAUGAUUUAUUCAUAAAUUCAGCAUACGCUAAGGGCACA
......((....))((((....).)))...(((..(((((.((((.((....((((.....))))....)).)))).)))))..)))... ( -26.30)
>DroYak_CAF1 58602 90 - 1
CGAAGAGGUCAUCCACUCGAAAGCAGAACAGCCACUGGCGAAUGCGGAUCAAAUGAUUUAUUCAUAAAUUCCGCAUACGCUAAGGGCACA
....(((........)))............(((..(((((.(((((((....((((.....))))....))))))).)))))..)))... ( -31.50)
>consensus
CGAAGAGGUCAUCCACUCGAAAGCAGGACAGCCACUGGCGAAUGGGGAUCAAAUGAUUUAUUCAUAAAUUCCGCAUACGCUAAGGGCACA
....(((........)))............(((..(((((.(((.(((....((((.....))))....))).))).)))))..)))... (-24.20 = -24.60 +   0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:11:51 2006