Locus 2454

Sequence ID 3R_DroMel_CAF1
Location 6,781,606 – 6,781,699
Length 93
Max. P 0.853946
window4018 window4019

overview

Window 8

Location 6,781,606 – 6,781,699
Length 93
Sequences 6
Columns 99
Reading direction forward
Mean pairwise identity 90.32
Mean single sequence MFE -21.90
Consensus MFE -18.21
Energy contribution -18.77
Covariance contribution 0.56
Combinations/Pair 1.05
Mean z-score -2.32
Structure conservation index 0.83
SVM decision value 0.80
SVM RNA-class probability 0.853946
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6781606 93 + 27905053
GUUUUGGUGUAAACAUGGGCACGAACAUUUUGUCAGGCAUC------GCCGACCGAAAAUGGCAAAUAAAAUCAGCAAAUAAAUGAAAAGCCUGACAAU
((((..((((........))))))))...(((((((((...------((((........))))........(((.........)))...))))))))). ( -24.80)
>DroSec_CAF1 45723 93 + 1
GUUUUGGUGUAAACAUGGGCACGAACAUUUUGUCAGGCCUC------GCCGACCGAAAAUGGCAAAUAAAAUCAGCAAAUAAAUGAAAAGCCUGACAAU
((((..((((........))))))))...(((((((((...------((((........))))........(((.........)))...))))))))). ( -23.90)
>DroSim_CAF1 49757 93 + 1
GUUUUGGUGUAAACAUGGGCACGAACAUUUUGUCAGGCCUC------GCCGACCGAAAAUGGCAAAUAAAAUCAGCAAAUAAAUGAAAAGCCUGACAAU
((((..((((........))))))))...(((((((((...------((((........))))........(((.........)))...))))))))). ( -23.90)
>DroEre_CAF1 30983 93 + 1
GUUUUGGUGUAAACAUGGGCACGAACAUUUUGUCAGGCCUC------ACCGACCAAAAAUGGCAAAUAAAAUCAGCAAAUAAAUGAAAAGCCUGACAAU
((((..((((........))))))))...(((((((((...------...(.(((....))))........(((.........)))...))))))))). ( -21.30)
>DroYak_CAF1 43387 99 + 1
GUUUCGGUGUAAACAUGGGCACGAACAUUUUGUCAGGCAUUUUGUUAGGCGACCGAAAAUGGCAAAUAAAAUCAGCAAAUAAAUGAAAAGCCUGACAAU
((((..((((........))))))))...(((((((((..(((((((..(....)....))))))).....(((.........)))...))))))))). ( -23.60)
>DroAna_CAF1 2838 88 + 1
GC----GUGUAAACAUGAGCACAAACAUUUUGUCAGCCCAU------GUCGGCU-AAAAUAGCAAAUAAAAUCAACAAAUAAAUGAAAAGCCUGACAAU
..----((((........)))).......(((((((....(------((..(((-(...))))..)))...(((.........))).....))))))). ( -13.90)
>consensus
GUUUUGGUGUAAACAUGGGCACGAACAUUUUGUCAGGCCUC______GCCGACCGAAAAUGGCAAAUAAAAUCAGCAAAUAAAUGAAAAGCCUGACAAU
......((((........)))).......(((((((((.........((((........))))........(((.........)))...))))))))). (-18.21 = -18.77 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 6,781,606 – 6,781,699
Length 93
Sequences 6
Columns 99
Reading direction reverse
Mean pairwise identity 90.32
Mean single sequence MFE -21.43
Consensus MFE -18.61
Energy contribution -18.56
Covariance contribution -0.05
Combinations/Pair 1.26
Mean z-score -1.77
Structure conservation index 0.87
SVM decision value 0.68
SVM RNA-class probability 0.820787
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6781606 93 - 27905053
AUUGUCAGGCUUUUCAUUUAUUUGCUGAUUUUAUUUGCCAUUUUCGGUCGGC------GAUGCCUGACAAAAUGUUCGUGCCCAUGUUUACACCAAAAC
.(((((((((...........(((((((((...............)))))))------)).)))))))))..(((.(((....)))...)))....... ( -22.16)
>DroSec_CAF1 45723 93 - 1
AUUGUCAGGCUUUUCAUUUAUUUGCUGAUUUUAUUUGCCAUUUUCGGUCGGC------GAGGCCUGACAAAAUGUUCGUGCCCAUGUUUACACCAAAAC
.((((((((((..........(((((((((...............)))))))------))))))))))))..(((.(((....)))...)))....... ( -23.36)
>DroSim_CAF1 49757 93 - 1
AUUGUCAGGCUUUUCAUUUAUUUGCUGAUUUUAUUUGCCAUUUUCGGUCGGC------GAGGCCUGACAAAAUGUUCGUGCCCAUGUUUACACCAAAAC
.((((((((((..........(((((((((...............)))))))------))))))))))))..(((.(((....)))...)))....... ( -23.36)
>DroEre_CAF1 30983 93 - 1
AUUGUCAGGCUUUUCAUUUAUUUGCUGAUUUUAUUUGCCAUUUUUGGUCGGU------GAGGCCUGACAAAAUGUUCGUGCCCAUGUUUACACCAAAAC
.((((((((((..(((.........)))..((((..((((....))))..))------))))))))))))..(((.(((....)))...)))....... ( -23.10)
>DroYak_CAF1 43387 99 - 1
AUUGUCAGGCUUUUCAUUUAUUUGCUGAUUUUAUUUGCCAUUUUCGGUCGCCUAACAAAAUGCCUGACAAAAUGUUCGUGCCCAUGUUUACACCGAAAC
.(((((((((.............(((((...............))))).............)))))))))....((((((..........)).)))).. ( -19.43)
>DroAna_CAF1 2838 88 - 1
AUUGUCAGGCUUUUCAUUUAUUUGUUGAUUUUAUUUGCUAUUUU-AGCCGAC------AUGGGCUGACAAAAUGUUUGUGCUCAUGUUUACAC----GC
.......((((..(((.........)))................-))))(((------((((((.(((.....)))...))))))))).....----.. ( -17.17)
>consensus
AUUGUCAGGCUUUUCAUUUAUUUGCUGAUUUUAUUUGCCAUUUUCGGUCGGC______GAGGCCUGACAAAAUGUUCGUGCCCAUGUUUACACCAAAAC
.((((((((((((..........(((((...............)))))..........))))))))))))..(((.(((....)))...)))....... (-18.61 = -18.56 +  -0.05)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:36:43 2006