Locus 3193

Sequence ID	X_DroMel_CAF1
Location	8,464,880 – 8,465,079
Length	199
Max. P	0.595392

overview

Window 6

Location	8,464,880 – 8,464,988
Length	108
Sequences	5
Columns	117
Reading direction	reverse
Mean pairwise identity	80.31
Mean single sequence MFE	-26.46
Consensus MFE	-17.34
Energy contribution	-17.98
Covariance contribution	0.64
Combinations/Pair	1.11
Mean z-score	-1.63
Structure conservation index	0.66
SVM decision value	0.07
SVM RNA-class probability	0.569305
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8464880 108 - 22224390
AUCAAAAUCAAAAUCGUGGCAUCCAUUGUGUUGAUGUUUUGUGUGCUGCCGAUGGCGACACCAUCGAUAUACAA--------UAUAUAUAUAUUGCCAAGAUCAUCUUUGCGU-CCA
............(((.(((((.....((((((((((((.((.(((.((((...)))).)))))..))))).)))--------)))).......))))).)))...........-... ( -24.70)
>DroSec_CAF1 7674 101 - 1
AUC------AAAAUCGUGGCAUCCAUUGUGUUGAUGUUUUGUGUGCUGCCAAUGGCGACACCAUCGAUAUA---------UAUGUAUAUAUAUUGCCAAGAUCAUCUUUGGGU-CCA
...------.......(((.(((((..(...((((.((.((.(((.((((...)))).))))).(((((((---------((....)))))))))..)).)))).)..)))))-))) ( -24.70)
>DroSim_CAF1 16444 110 - 1
AUC------AAAAUCGUGGCAUCCAUUGUGUUGAUGUUUUGUGUGCUGCCGAUGGCGACACCAUCGAUAUAUGAUGUAUAUACAUAUAUAUAUUGCCAAGAUCAUCUUUGGGU-CCA
.((------((((((.((((......((((((((((....(((((((......))).)))))))))))))).(((((((((....))))))))))))).)))....)))))..-... ( -30.00)
>DroYak_CAF1 14314 99 - 1
AUC------AAAAUCGUGGCAUCCAUUGUGUUGCUGUUUUGUGUGCUGCCGAUGGCGACACCAUCGAUAUA---------UACAUA--UAUAUUGCCGAGAUCAUCUUUGGGU-CCA
...------.......(((.(((((..(((((((((((..((.....)).)))))))))))...(((((((---------(....)--))))))).............)))))-))) ( -24.20)
>DroAna_CAF1 23667 107 - 1
-UU-------UUCUGAUGGCAUCCUUUGUUUUGAUAUUUUGUGUGCUGCCGAUGGCGACACCAUCGAUAUAUUCGAUAUAUACA--CACACAUUCCAGGGAUCAUUUUUUGGUCCCA
-..-------.((....((((.....))))..)).....((((((.((.((((((.....))))))((((((...)))))).))--)))))).....(((((((.....))))))). ( -28.70)
>consensus
AUC______AAAAUCGUGGCAUCCAUUGUGUUGAUGUUUUGUGUGCUGCCGAUGGCGACACCAUCGAUAUA_________UACAUAUAUAUAUUGCCAAGAUCAUCUUUGGGU_CCA
................(((.(((((.((((((((((....(((((((......))).))))))))))))))..........................(((.....)))))))).))) (-17.34 = -17.98 +   0.64)

alignment

secondary structure

dotplot

Window 7

Location	8,464,988 – 8,465,079
Length	91
Sequences	3
Columns	103
Reading direction	reverse
Mean pairwise identity	80.21
Mean single sequence MFE	-18.75
Consensus MFE	-13.30
Energy contribution	-13.30
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-1.55
Structure conservation index	0.71
SVM decision value	0.12
SVM RNA-class probability	0.595392
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8464988 91 - 22224390
GAUCGGCUUUCAGAUGGACAAAAACAAAAAAAAAAAAAAGUGCACUCAAAAAGGAGGAC------UCCGAACUCAUCUGUUCCUCCCCGAAAUC------GAA
..((((.((((.((((.((....................)).)).)).....((((((.------.(.((.....)).).))))))..))))))------)). ( -16.35)
>DroEre_CAF1 14348 83 - 1
GAUCGGCUUUCAGAUGGACAAAA--------------AAGUGCACUCAAAAAGGAGGAC------UCCGAACUCAUCUGUUCCUCCCCGAAAUCGAAAUCGAA
..((((......((((.((....--------------..)).)).)).....((((((.------.(.((.....)).).))))))))))..(((....))). ( -18.80)
>DroYak_CAF1 14413 83 - 1
GAUCGGCUUUCAGAUGGACAAAA--------------AAGUGCACUCAAAGAGGAGGACCUCGCAUCUGAACUCAUCUGUUCCUCCCCGAAAUC------GAA
..((((((((.((.((.((....--------------..)).)))).)))).((((((....(((..((....))..)))))))))))))....------... ( -21.10)
>consensus
GAUCGGCUUUCAGAUGGACAAAA______________AAGUGCACUCAAAAAGGAGGAC______UCCGAACUCAUCUGUUCCUCCCCGAAAUC______GAA
..((((......((((.((....................)).)).)).....((((((......................))))))))))............. (-13.30 = -13.30 +  -0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:53:25 2006