Locus 762

Sequence ID	2R_DroMel_CAF1
Location	3,686,108 – 3,686,231
Length	123
Max. P	0.718951

overview

Window 3

Location	3,686,108 – 3,686,199
Length	91
Sequences	5
Columns	91
Reading direction	forward
Mean pairwise identity	94.84
Mean single sequence MFE	-25.89
Consensus MFE	-20.96
Energy contribution	-20.68
Covariance contribution	-0.28
Combinations/Pair	1.16
Mean z-score	-1.63
Structure conservation index	0.81
SVM decision value	0.39
SVM RNA-class probability	0.718951
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 3686108 91 + 20766785
UGUGUUUGGCGGAUAAGAAAAUCGCGGCAUGAGGGAUGCUGAAGUGAUUGAGUGCGGUGUACUAAUGUGCAGCGAAUUCUGAGCGCGUAAA
.((((((............(((((((((((.....)))))...))))))((((.((.(((((....))))).)).)))).))))))..... ( -26.80)
>DroSec_CAF1 6392 91 + 1
UGUGUUUGGCGGAUAAGAAAAUCGCGGCAUGAGGGAUGCUGAAGUGAUUGAGUGCGGUGUACUAAUGUGCUGCGAAUUCUGAGCGCGCAAA
....(((((((....((((..((((((((((..((((((((.............)))))).))..)))))))))).))))...))).)))) ( -27.02)
>DroSim_CAF1 5883 91 + 1
UGUGUUUGGCGGAUAAGAAAAUCGCGGCAUGAGGGAUGCUGAAGUGAUUGAGUGCGGUGUACUAAUGUGCUGCGAAUUCUGAGCGCGCAAA
....(((((((....((((..((((((((((..((((((((.............)))))).))..)))))))))).))))...))).)))) ( -27.02)
>DroEre_CAF1 6454 91 + 1
UGUGUUUGGCGGAUCAGAAAAUCGCGGCAUGAGGGAUGCUGAAGUGCUUGAGUGCGGUGUACUAAUAUGCAGCAAAUUCUGAGCGCGCAAA
....(((((((..((((((....((.(((((..((.(((....(..(....)..)...)))))..))))).))...)))))).))).)))) ( -26.80)
>DroYak_CAF1 6334 90 + 1
UGUGAUUGGCGGAU-GGAAAAUUGCGGCAUGAGGGAUGCUGAAGUGAUUGAGUGCGGUGUACUAAUAUGCAGCGAAUGCUGAGCGCGCAAA
((((.(..(((..(-....).((((.(((((..((((((((.............)))))).))..))))).)))).)))..)...)))).. ( -21.82)
>consensus
UGUGUUUGGCGGAUAAGAAAAUCGCGGCAUGAGGGAUGCUGAAGUGAUUGAGUGCGGUGUACUAAUGUGCAGCGAAUUCUGAGCGCGCAAA
........((((...((((..((((.(((((..((((((((.............)))))).))..))))).)))).))))...).)))... (-20.96 = -20.68 +  -0.28)

alignment

secondary structure

dotplot

Window 4

Location	3,686,120 – 3,686,231
Length	111
Sequences	5
Columns	111
Reading direction	forward
Mean pairwise identity	94.32
Mean single sequence MFE	-27.50
Consensus MFE	-21.52
Energy contribution	-21.80
Covariance contribution	0.28
Combinations/Pair	1.12
Mean z-score	-1.65
Structure conservation index	0.78
SVM decision value	0.11
SVM RNA-class probability	0.589374
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 3686120 111 + 20766785
AUAAGAAAAUCGCGGCAUGAGGGAUGCUGAAGUGAUUGAGUGCGGUGUACUAAUGUGCAGCGAAUUCUGAGCGCGUAAAGCGUUUCGAAAAAUUAAACAAACAAAAUGCAU
.......(((((((((((.....)))))...))))))..(((((.(((((....))))).)...(((.((((((.....)))))).)))..................)))) ( -29.50)
>DroSec_CAF1 6404 111 + 1
AUAAGAAAAUCGCGGCAUGAGGGAUGCUGAAGUGAUUGAGUGCGGUGUACUAAUGUGCUGCGAAUUCUGAGCGCGCAAAGCGUUUCGAAAAAGUAAACAAACAAAAUGCAU
.........((((((((((..((((((((.............)))))).))..)))))))))).(((.((((((.....)))))).)))...................... ( -29.12)
>DroSim_CAF1 5895 111 + 1
AUAAGAAAAUCGCGGCAUGAGGGAUGCUGAAGUGAUUGAGUGCGGUGUACUAAUGUGCUGCGAAUUCUGAGCGCGCAAAACGUUUCGAAAAAGUAAACAAACAAAAUGCAU
.......(((((((((((.....)))))...))))))..(((((.(((.....(((((.((.........)))))))....(((((......).))))..)))...))))) ( -24.50)
>DroEre_CAF1 6466 111 + 1
AUCAGAAAAUCGCGGCAUGAGGGAUGCUGAAGUGCUUGAGUGCGGUGUACUAAUAUGCAGCAAAUUCUGAGCGCGCAAAGCGUUUCAAGAAAGUAAACAAACAAAAUGCAU
..............((((..(..(((((...((((((((((..(.((((......)))).)..)))).))))))....)))))..)......((......))...)))).. ( -28.60)
>DroYak_CAF1 6346 110 + 1
AU-GGAAAAUUGCGGCAUGAGGGAUGCUGAAGUGAUUGAGUGCGGUGUACUAAUAUGCAGCGAAUGCUGAGCGCGCAAAGCGUUUCGAAAAAGUAAACAAACAAAAUGCUU
..-..........(((((..(..(((((...(((.((.(((.((.((((......)))).))...))).)))))....)))))..)......((......))...))))). ( -25.80)
>consensus
AUAAGAAAAUCGCGGCAUGAGGGAUGCUGAAGUGAUUGAGUGCGGUGUACUAAUGUGCAGCGAAUUCUGAGCGCGCAAAGCGUUUCGAAAAAGUAAACAAACAAAAUGCAU
.........((((.(((((..((((((((.............)))))).))..))))).)))).(((.((((((.....)))))).)))...................... (-21.52 = -21.80 +   0.28)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:46:29 2006