Locus 2779

Sequence ID	X_DroMel_CAF1
Location	7,468,757 – 7,468,912
Length	155
Max. P	0.947766

overview

Window 6

Location	7,468,757 – 7,468,877
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	98.17
Mean single sequence MFE	-26.30
Consensus MFE	-25.80
Energy contribution	-25.80
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-1.20
Structure conservation index	0.98
SVM decision value	0.32
SVM RNA-class probability	0.688273
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7468757 120 - 22224390
CACAAAAAUAAAAGUGAGCCACAGAAGCGAAGCCACAUUUAUGGCGAUCGCGCAGCUUAAAACAUCCGGUAGUUAAACAAUCUUACAAUGAGCCUAAGCUCGGCUAAGUUGACUUCAAUU
(((..........)))((((......((((.((((......))))..))))(.((((((.....((..((((..........))))...))...))))))))))).(((((....))))) ( -26.20)
>DroSec_CAF1 2028 120 - 1
CACAAAAAUAAAAGUGAGCCACAGAAGCGAAGCCACAUUUAUGGCGAUCGCGCAGCUUAAAACAUCCGGUAGUUAAACAAUCUUACAAUGAGCCUAAGCUCGGCUAAGUUGACUUCAAUU
(((..........)))((((......((((.((((......))))..))))(.((((((.....((..((((..........))))...))...))))))))))).(((((....))))) ( -26.20)
>DroSim_CAF1 3730 120 - 1
CACAAAAAUAAAAGUGAGCCACAGAAGCGAAGCCACAUUUAUGGCGAUCGCGCAGCUUAAAACAUCCGGUAGUUAAACAAUCUUACAAUGAGCCUAAGCUCGGCUAAGUUGACUUCAAUU
(((..........)))((((......((((.((((......))))..))))(.((((((.....((..((((..........))))...))...))))))))))).(((((....))))) ( -26.20)
>DroEre_CAF1 2304 120 - 1
CACAGAAAUAAAAGUGAGCCACAGAAGCGAAGCCACAUUUAUGGCGAUCGCGCAGCUUAAAACAUCCGGUAGUUAAACAAUCUUACAAUGAGCCUAAGCUCGGCUAAGUUGACUUCAAUU
(((..........)))((((......((((.((((......))))..))))(.((((((.....((..((((..........))))...))...))))))))))).(((((....))))) ( -26.20)
>DroYak_CAF1 4246 120 - 1
AAUAGAAACAAAAGUGAGCCACAGUAGCGAAGCCACAUUUAUGGCGAUCGCGCAGCUUAAAACAUCCGGUAGUUAAACAAUCUUACAAUGAGCCUAAGCUCGGCUAAGUUGACUUCAAUU
....(((.(((.....((((...(((((((.((((......))))..))))..((((.............)))).........)))...((((....))))))))...)))..))).... ( -26.72)
>consensus
CACAAAAAUAAAAGUGAGCCACAGAAGCGAAGCCACAUUUAUGGCGAUCGCGCAGCUUAAAACAUCCGGUAGUUAAACAAUCUUACAAUGAGCCUAAGCUCGGCUAAGUUGACUUCAAUU
................((((......((((.((((......))))..))))(.((((((.....((..((((..........))))...))...))))))))))).(((((....))))) (-25.80 = -25.80 +   0.00)

alignment

secondary structure

dotplot

Window 7

Location	7,468,797 – 7,468,912
Length	115
Sequences	4
Columns	116
Reading direction	forward
Mean pairwise identity	95.49
Mean single sequence MFE	-30.00
Consensus MFE	-27.65
Energy contribution	-27.02
Covariance contribution	-0.62
Combinations/Pair	1.11
Mean z-score	-2.21
Structure conservation index	0.92
SVM decision value	1.38
SVM RNA-class probability	0.947766
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7468797 115 + 22224390
UUGUUUAACUACCGGAUGUUUUAAGCUGCGCGAUCGCCAUAAAUGUGGCUUCGCUUCUGUGGCUCACUUUUAUUUUUGUGGGCUGUGGCAUGUCUGGAUUUCUUUGAUU-UUUAUA
...........((((((((.....((..(((((..(((((....))))).))))......(((((((..........))))))))..))))))))))............-...... ( -35.30)
>DroSec_CAF1 2068 113 + 1
UUGUUUAACUACCGGAUGUUUUAAGCUGCGCGAUCGCCAUAAAUGUGGCUUCGCUUCUGUGGCUCACUUUUAUUUUUGUGGGUU--GGCAUGUCUAGAUUUCUUUGAUU-UGUAUA
.............(((...((((..((((((((..(((((....))))).))))......(((((((..........)))))))--.))).)..))))..)))......-...... ( -26.50)
>DroSim_CAF1 3770 113 + 1
UUGUUUAACUACCGGAUGUUUUAAGCUGCGCGAUCGCCAUAAAUGUGGCUUCGCUUCUGUGGCUCACUUUUAUUUUUGUGGGUU--GGCAUGUCUGGAUUUCUUUGAUU-UUUAUA
...........((((((((.....(((..((((..(((((....))))).))))......(((((((..........)))))))--)))))))))))............-...... ( -29.20)
>DroEre_CAF1 2344 112 + 1
UUGUUUAACUACCGGAUGUUUUAAGCUGCGCGAUCGCCAUAAAUGUGGCUUCGCUUCUGUGGCUCACUUUUAUUUCUGUGGGCU--GGCAUGUCUGAAUUUCUUUGAUUUUUU--A
.............(((...((((..((((((((..(((((....))))).))))......(((((((..........)))))))--.))).)..))))..)))..........--. ( -29.00)
>consensus
UUGUUUAACUACCGGAUGUUUUAAGCUGCGCGAUCGCCAUAAAUGUGGCUUCGCUUCUGUGGCUCACUUUUAUUUUUGUGGGCU__GGCAUGUCUGGAUUUCUUUGAUU_UUUAUA
.............(((...((((..((((((((..(((((....))))).))))......(((((((..........)))))))...))).)..))))..)))............. (-27.65 = -27.02 +  -0.62)

alignment

secondary structure

dotplot

Window 8

Location	7,468,797 – 7,468,912
Length	115
Sequences	4
Columns	116
Reading direction	reverse
Mean pairwise identity	95.49
Mean single sequence MFE	-20.45
Consensus MFE	-17.92
Energy contribution	-17.93
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-1.71
Structure conservation index	0.88
SVM decision value	0.26
SVM RNA-class probability	0.658160
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7468797 115 - 22224390
UAUAAA-AAUCAAAGAAAUCCAGACAUGCCACAGCCCACAAAAAUAAAAGUGAGCCACAGAAGCGAAGCCACAUUUAUGGCGAUCGCGCAGCUUAAAACAUCCGGUAGUUAAACAA
......-...............(((.((((...((.(((..........))).)).......((((.((((......))))..))))................)))))))...... ( -21.70)
>DroSec_CAF1 2068 113 - 1
UAUACA-AAUCAAAGAAAUCUAGACAUGCC--AACCCACAAAAAUAAAAGUGAGCCACAGAAGCGAAGCCACAUUUAUGGCGAUCGCGCAGCUUAAAACAUCCGGUAGUUAAACAA
......-...............(((.((((--....(((..........)))(((.......((((.((((......))))..))))...)))..........)))))))...... ( -19.20)
>DroSim_CAF1 3770 113 - 1
UAUAAA-AAUCAAAGAAAUCCAGACAUGCC--AACCCACAAAAAUAAAAGUGAGCCACAGAAGCGAAGCCACAUUUAUGGCGAUCGCGCAGCUUAAAACAUCCGGUAGUUAAACAA
......-...............(((.((((--....(((..........)))(((.......((((.((((......))))..))))...)))..........)))))))...... ( -19.20)
>DroEre_CAF1 2344 112 - 1
U--AAAAAAUCAAAGAAAUUCAGACAUGCC--AGCCCACAGAAAUAAAAGUGAGCCACAGAAGCGAAGCCACAUUUAUGGCGAUCGCGCAGCUUAAAACAUCCGGUAGUUAAACAA
.--...................(((.((((--.((.(((..........))).)).......((((.((((......))))..))))................)))))))...... ( -21.70)
>consensus
UAUAAA_AAUCAAAGAAAUCCAGACAUGCC__AACCCACAAAAAUAAAAGUGAGCCACAGAAGCGAAGCCACAUUUAUGGCGAUCGCGCAGCUUAAAACAUCCGGUAGUUAAACAA
......................(((.((((......(((..........)))(((.......((((.((((......))))..))))...)))..........)))))))...... (-17.92 = -17.93 +   0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:42:59 2006