Locus 802

Sequence ID 2R_DroMel_CAF1
Location 3,808,820 – 3,808,925
Length 105
Max. P 0.992484
window1406 window1407

overview

Window 6

Location 3,808,820 – 3,808,925
Length 105
Sequences 3
Columns 105
Reading direction forward
Mean pairwise identity 75.59
Mean single sequence MFE -23.07
Consensus MFE -14.04
Energy contribution -13.93
Covariance contribution -0.11
Combinations/Pair 1.12
Mean z-score -2.41
Structure conservation index 0.61
SVM decision value 2.33
SVM RNA-class probability 0.992484
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 3808820 105 + 20766785
UUUGCAAAAUGAAAAGACGCCUUCUUGAUGGAUAUUCAGCUGAAUCCUGCAUCCUGCCUGAUUUUAAAACAGGCUGUUCAAAGCUAAGGCGAUCUAAUCAAAUAU
.........(((..(((((((((..(..((((((....((........)).....(((((.........)))))))))))..)..)))))).)))..)))..... ( -24.80)
>DroSec_CAF1 65265 85 + 1
-----------AAAAGCCGCCUUUUUGAUGGA--------UGAAUCUUGCAUCCUGCCUUCAUUUAGAGCAGGCUGUUCAAAGCCAAGGCAAUAUAAUUAAUUA-
-----------....(((((((...(((.(((--------((.......))))).....)))...)).)).((((......))))..)))..............- ( -23.10)
>DroSim_CAF1 78845 84 + 1
-----------AA-AGCCGCCUUCUUUAUGGA--------UGAAUCCUGCAUCCUGCCUUCAUUCAGAGCAGGCUGUUCAAAGCCAAGGCAAUAUAAUUAAUUA-
-----------..-....(((((.....((((--------((((....((.....)).)))))))).....((((......)))))))))..............- ( -21.30)
>consensus
___________AAAAGCCGCCUUCUUGAUGGA________UGAAUCCUGCAUCCUGCCUUCAUUUAGAGCAGGCUGUUCAAAGCCAAGGCAAUAUAAUUAAUUA_
..................(((((.................(((((...((.....))....))))).....((((......)))))))))............... (-14.04 = -13.93 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 3,808,820 – 3,808,925
Length 105
Sequences 3
Columns 105
Reading direction reverse
Mean pairwise identity 75.59
Mean single sequence MFE -24.73
Consensus MFE -15.71
Energy contribution -15.50
Covariance contribution -0.21
Combinations/Pair 1.17
Mean z-score -2.20
Structure conservation index 0.64
SVM decision value 2.11
SVM RNA-class probability 0.988126
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 3808820 105 - 20766785
AUAUUUGAUUAGAUCGCCUUAGCUUUGAACAGCCUGUUUUAAAAUCAGGCAGGAUGCAGGAUUCAGCUGAAUAUCCAUCAAGAAGGCGUCUUUUCAUUUUGCAAA
.....(((..(((.((((((...(((((...(((((.........))))).((((((((.......)))..))))).))))))))))))))..)))......... ( -30.80)
>DroSec_CAF1 65265 85 - 1
-UAAUUAAUUAUAUUGCCUUGGCUUUGAACAGCCUGCUCUAAAUGAAGGCAGGAUGCAAGAUUCA--------UCCAUCAAAAAGGCGGCUUUU-----------
-............(((((((...(((((...((((.(.......).)))).(((((.......))--------))).)))))))))))).....----------- ( -21.10)
>DroSim_CAF1 78845 84 - 1
-UAAUUAAUUAUAUUGCCUUGGCUUUGAACAGCCUGCUCUGAAUGAAGGCAGGAUGCAGGAUUCA--------UCCAUAAAGAAGGCGGCU-UU-----------
-............((((((...(((((..((.(((((.((......))))))).))..(((....--------))).))))).))))))..-..----------- ( -22.30)
>consensus
_UAAUUAAUUAUAUUGCCUUGGCUUUGAACAGCCUGCUCUAAAUGAAGGCAGGAUGCAGGAUUCA________UCCAUCAAGAAGGCGGCUUUU___________
..............((((((...(((((.((.(((((.((......))))))).))..(((............))).)))))))))))................. (-15.71 = -15.50 +  -0.21)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:47:47 2006