Locus 5851

Sequence ID 2R_DroMel_CAF1
Location 18,507,711 – 18,507,855
Length 144
Max. P 0.671949
window9396 window9397

overview

Window 6

Location 18,507,711 – 18,507,828
Length 117
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 76.21
Mean single sequence MFE -28.85
Consensus MFE -14.64
Energy contribution -15.52
Covariance contribution 0.88
Combinations/Pair 1.33
Mean z-score -1.77
Structure conservation index 0.51
SVM decision value 0.12
SVM RNA-class probability 0.590981
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18507711 117 - 20766785
CUAUCAACAAGAAUUUAGACUCUAUCUUAUCUGCAC--AUGAGUGGUUUAGAUGAGUCCCAGUUCUGAAGUGGCCAAUUCAAUGAAUUACGACCUUAUCUGAUC-UACAGAUAGGCAGAC
....((...((((((..(((((.((((...(..(..--....)..)...)))))))))..))))))....))((((((((...))))).......((((((...-..))))))))).... ( -30.10)
>DroSec_CAF1 6711 117 - 1
CUAUCAACGUGAAUUUAGACUCUAUCUAAUCUGCAC--AUGAGUGGGUUAGAUGAGUUCCAGUUCUGAAGUGGCCAAUUCAAUGAAUUACGACGGUAUCUGAUC-UACAGAUAGGCAGAC
....((....(((((..(((((.((((((((..(..--....)..)))))))))))))..))))).....))((((((((...))))).......((((((...-..))))))))).... ( -33.00)
>DroSim_CAF1 4902 117 - 1
CUAUCAACGUGAAUUUAGACUCUAUCUAAUCUGCAC--AUGAGUGGGUUAGAUGAGUUCCAGUUCUGAAGUGGCCAAUUCAAUGAAUUACGACCUUAUCUGAUC-UACAGAUAGGCAGAC
(((((...(((...(((((.....)))))....)))--....((((((((((((((.((.(((((((((........))))..)))))..)).)))))))))))-))).)))))...... ( -35.00)
>DroEre_CAF1 9714 106 - 1
CCAUCAUCGUGAAUUUAUACACUAUCUAAUCUG-------------GUUAGAUGAAUUCCAGUUCUAAAGUGGCCAACUCAAUGAAUUACGACCUUAUCUGAUC-UACAGAUGGUCAGAC
(((((...(((........)))..........(-------------(((((((((..((.(((((...(((.....)))....)))))..))..))))))))))-....)))))...... ( -22.20)
>DroYak_CAF1 12115 117 - 1
CCAUCGACGUGAGUUUAAACACUAUCUAAUCUGCAA--CCGAGUGGGUUAGAUGAGUCCCAGCUCUGAAGUGGCCAAUUCAUUGAAUUACGACCUUAUCUGAUC-UACAGAUAGUCAGAC
.....((((((((((....((((((((((((..(..--....)..))))))))((((....))))...))))...))))))).............((((((...-..))))))))).... ( -32.00)
>DroPer_CAF1 4636 98 - 1
------------------GGAGUAUCUAAUCUAGACAGAGAAAUGGGUUUGAUAAGUCUCGCUCUUCGAGUGGCCUCUUGAAUGAAUUACGG----AUCUACUCGUAUAGAUAGACAGUC
------------------....((((.((((((..........)))))).)))).((((..((...(((((((..((.(((.....))).))----..)))))))...))..)))).... ( -20.80)
>consensus
CUAUCAACGUGAAUUUAGACACUAUCUAAUCUGCAC__AUGAGUGGGUUAGAUGAGUCCCAGUUCUGAAGUGGCCAAUUCAAUGAAUUACGACCUUAUCUGAUC_UACAGAUAGGCAGAC
......................((((((((((((........)))))))))))).(((..(((((((((........))))..)))))..)))..((((((......))))))....... (-14.64 = -15.52 +   0.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 18,507,750 – 18,507,855
Length 105
Sequences 5
Columns 118
Reading direction reverse
Mean pairwise identity 79.84
Mean single sequence MFE -25.38
Consensus MFE -17.89
Energy contribution -19.74
Covariance contribution 1.85
Combinations/Pair 1.08
Mean z-score -1.62
Structure conservation index 0.70
SVM decision value 0.29
SVM RNA-class probability 0.671949
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18507750 105 - 20766785
GCCAGACACA-------------ACUUCCAAUAAAAUCGACUAUCAACAAGAAUUUAGACUCUAUCUUAUCUGCACAUGAGUGGUUUAGAUGAGUCCCAGUUCUGAAGUGGCCAAUUC
(((.......-------------(((((..........(.....)....((((((..(((((.((((...(..(......)..)...)))))))))..))))))))))))))...... ( -22.91)
>DroSec_CAF1 6750 105 - 1
GCCAGACACA-------------ACAUCCCAUUAAAUCGACUAUCAACGUGAAUUUAGACUCUAUCUAAUCUGCACAUGAGUGGGUUAGAUGAGUUCCAGUUCUGAAGUGGCCAAUUC
((((......-------------...............(.....)..((.(((((..(((((.((((((((..(......)..)))))))))))))..)))))))...))))...... ( -25.80)
>DroSim_CAF1 4941 105 - 1
GCCAGACACA-------------ACUUCCAAUUAAAUCAACUAUCAACGUGAAUUUAGACUCUAUCUAAUCUGCACAUGAGUGGGUUAGAUGAGUUCCAGUUCUGAAGUGGCCAAUUC
(((.......-------------(((((...........((.......))(((((..(((((.((((((((..(......)..)))))))))))))..))))).))))))))...... ( -26.11)
>DroEre_CAF1 9753 107 - 1
GCCAGACACAGUUUACACGGCACACUUCCAAUUAAGUGGACCAUCAUCGUGAAUUUAUACACUAUCUAAUCUG-----------GUUAGAUGAAUUCCAGUUCUAAAGUGGCCAACUC
..................(((.(((((......((.((((...((((((((........))).(((......)-----------))..)))))..)))).))...))))))))..... ( -21.50)
>DroYak_CAF1 12154 118 - 1
GCCAGACACAAUUUACAAGGCACACUUGCAAUUAAAUCGACCAUCGACGUGAGUUUAAACACUAUCUAAUCUGCAACCGAGUGGGUUAGAUGAGUCCCAGCUCUGAAGUGGCCAAUUC
..................(((.(((((.((......(((.....)))...(((((.....(((((((((((..(......)..)))))))).)))...)))))))))))))))..... ( -30.60)
>consensus
GCCAGACACA_____________ACUUCCAAUUAAAUCGACUAUCAACGUGAAUUUAGACUCUAUCUAAUCUGCACAUGAGUGGGUUAGAUGAGUUCCAGUUCUGAAGUGGCCAAUUC
((((..................................(.....).....(((((..(((((.(((((((((((......))))))))))))))))..))))).....))))...... (-17.89 = -19.74 +   1.85)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:56:26 2006