Locus 5591

Sequence ID	3L_DroMel_CAF1
Location	15,337,128 – 15,337,273
Length	145
Max. P	0.836089

overview

Window 9

Location	15,337,128 – 15,337,237
Length	109
Sequences	5
Columns	109
Reading direction	forward
Mean pairwise identity	92.00
Mean single sequence MFE	-32.88
Consensus MFE	-28.12
Energy contribution	-28.12
Covariance contribution	-0.00
Combinations/Pair	1.12
Mean z-score	-1.48
Structure conservation index	0.86
SVM decision value	0.73
SVM RNA-class probability	0.836089
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15337128 109 + 23771897
AGGGCAUGGCGAGGCUCAGUUUGAGAACUGUUCAGCUCAGCUUCUUCGUGGCUUAGAAGCCACUGCCACAGCAUGUUAACUAGAGCACUGAGCAAAAUUUAAUUAAUGU
...((.((((((((((.((((.(((.....))))))).))))))...((((((....)))))).))))(((..((((......))))))).))................ ( -32.40)
>DroSec_CAF1 69185 109 + 1
AGGGCAUGGCGAGGCUCAGUUUGAGAACUGUUCAGCUCAGCUUCUUCGUGGCUUAGGAGCCACUGCCACAGCAUGUUAACUAGAGCACUGAGCAAAAUUUAAUUAAUGU
...((.((((((((((.((((.(((.....))))))).))))))...((((((....)))))).))))(((..((((......))))))).))................ ( -32.60)
>DroSim_CAF1 70586 109 + 1
AGGGCAUGGCGAGGCUCAGUUUGAGAACUGUUCAGCUCAGCUUCUUCGUGGCUUAGGAGCCACUGCCACAGCAUGUUAACUAGAGCACUGAGCAAAAUUUAAUUAAUGU
...((.((((((((((.((((.(((.....))))))).))))))...((((((....)))))).))))(((..((((......))))))).))................ ( -32.60)
>DroEre_CAF1 69485 107 + 1
GGGGCGUGGCGAGGCUCAGU-UGAGAACUGUUCAGCUCAGCUUCUUCGUGGCUUAGGAGCCUCUGCCACAGCAUGUUAACUAGAACACUGAACGAAAUUUA-AAUACGC
...(((((((((((((.(((-((((.....))))))).))))))...(((((..((....))..))))).)).((((......))))..............-..))))) ( -35.00)
>DroYak_CAF1 71612 107 + 1
GGGGCAUGGCGAGGCUCAGU-UGAGAACUGUUCAGCUCAGCUUCUUCGUGGCUUAGGAGUCUGUGCCACAGCAUGUUAACUAGAACACUGAAAAAAAUUAA-UUAAAGU
..((((((.(((((((.(((-((((.....))))))).))))))...(((((.(((....))).))))).)))))))........................-....... ( -31.80)
>consensus
AGGGCAUGGCGAGGCUCAGUUUGAGAACUGUUCAGCUCAGCUUCUUCGUGGCUUAGGAGCCACUGCCACAGCAUGUUAACUAGAGCACUGAGCAAAAUUUAAUUAAUGU
...(((((((((((((.(((.((((.....))))))).))))))...((((((....)))))).))).(((..((((......)))))))...............)))) (-28.12 = -28.12 +  -0.00)

alignment

secondary structure

dotplot

Window 0

Location	15,337,128 – 15,337,237
Length	109
Sequences	5
Columns	109
Reading direction	reverse
Mean pairwise identity	92.00
Mean single sequence MFE	-29.62
Consensus MFE	-24.44
Energy contribution	-24.16
Covariance contribution	-0.28
Combinations/Pair	1.08
Mean z-score	-1.49
Structure conservation index	0.83
SVM decision value	0.46
SVM RNA-class probability	0.747019
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15337128 109 - 23771897
ACAUUAAUUAAAUUUUGCUCAGUGCUCUAGUUAACAUGCUGUGGCAGUGGCUUCUAAGCCACGAAGAAGCUGAGCUGAACAGUUCUCAAACUGAGCCUCGCCAUGCCCU
............(((.((((((((((.((((......)))).))).((((((....))))))......))))))).)))(((((....)))))................ ( -31.60)
>DroSec_CAF1 69185 109 - 1
ACAUUAAUUAAAUUUUGCUCAGUGCUCUAGUUAACAUGCUGUGGCAGUGGCUCCUAAGCCACGAAGAAGCUGAGCUGAACAGUUCUCAAACUGAGCCUCGCCAUGCCCU
............(((.((((((((((.((((......)))).))).((((((....))))))......))))))).)))(((((....)))))................ ( -31.50)
>DroSim_CAF1 70586 109 - 1
ACAUUAAUUAAAUUUUGCUCAGUGCUCUAGUUAACAUGCUGUGGCAGUGGCUCCUAAGCCACGAAGAAGCUGAGCUGAACAGUUCUCAAACUGAGCCUCGCCAUGCCCU
............(((.((((((((((.((((......)))).))).((((((....))))))......))))))).)))(((((....)))))................ ( -31.50)
>DroEre_CAF1 69485 107 - 1
GCGUAUU-UAAAUUUCGUUCAGUGUUCUAGUUAACAUGCUGUGGCAGAGGCUCCUAAGCCACGAAGAAGCUGAGCUGAACAGUUCUCA-ACUGAGCCUCGCCACGCCCC
((((...-.....((((((((((.(((((((......)))(((((..((....))..)))))..))))))))))).)))..((((...-...))))......))))... ( -31.70)
>DroYak_CAF1 71612 107 - 1
ACUUUAA-UUAAUUUUUUUCAGUGUUCUAGUUAACAUGCUGUGGCACAGACUCCUAAGCCACGAAGAAGCUGAGCUGAACAGUUCUCA-ACUGAGCCUCGCCAUGCCCC
.......-......((((((.(((((......)))))...(((((..((....))..)))))))))))((((.((.((...((((...-...)))).)))))).))... ( -21.80)
>consensus
ACAUUAAUUAAAUUUUGCUCAGUGCUCUAGUUAACAUGCUGUGGCAGUGGCUCCUAAGCCACGAAGAAGCUGAGCUGAACAGUUCUCAAACUGAGCCUCGCCAUGCCCU
................(((((((((((((((......)))(((((...(....)...)))))..)).))).(((((....)))))....)))))))............. (-24.44 = -24.16 +  -0.28)

alignment

secondary structure

dotplot

Window 1

Location	15,337,158 – 15,337,273
Length	115
Sequences	5
Columns	117
Reading direction	reverse
Mean pairwise identity	83.95
Mean single sequence MFE	-30.36
Consensus MFE	-21.02
Energy contribution	-21.54
Covariance contribution	0.52
Combinations/Pair	1.10
Mean z-score	-2.11
Structure conservation index	0.69
SVM decision value	0.71
SVM RNA-class probability	0.829156
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15337158 115 - 23771897
GGAUCUAGCAACCUUAGUGCAUCCUAUUAAAUA--CUAACAUUAAUUAAAUUUUGCUCAGUGCUCUAGUUAACAUGCUGUGGCAGUGGCUUCUAAGCCACGAAGAAGCUGAGCUGAA
((((...(((.......))))))).........--...................((((((((((.((((......)))).))).((((((....))))))......))))))).... ( -32.10)
>DroSec_CAF1 69215 115 - 1
GGCUCUAGCAACCUUAGUGCAUCCUAUUAAAUG--CUAACAUUAAUUAAAUUUUGCUCAGUGCUCUAGUUAACAUGCUGUGGCAGUGGCUCCUAAGCCACGAAGAAGCUGAGCUGAA
.....(((((...((((((.....)))))).))--)))................((((((((((.((((......)))).))).((((((....))))))......))))))).... ( -32.80)
>DroSim_CAF1 70616 115 - 1
GGCUCUAGCAACCUUAGUGCAUCCUAUUAAAUG--CUAACAUUAAUUAAAUUUUGCUCAGUGCUCUAGUUAACAUGCUGUGGCAGUGGCUCCUAAGCCACGAAGAAGCUGAGCUGAA
.....(((((...((((((.....)))))).))--)))................((((((((((.((((......)))).))).((((((....))))))......))))))).... ( -32.80)
>DroEre_CAF1 69514 111 - 1
GGCUGU----UCCUUAGCGC-UCCUAUAAAAUAUAUUUGCGUAUU-UAAAUUUCGUUCAGUGUUCUAGUUAACAUGCUGUGGCAGAGGCUCCUAAGCCACGAAGAAGCUGAGCUGAA
.((((.----....))))..-.......((((((......)))))-)....((((((((((.(((((((......)))(((((..((....))..)))))..))))))))))).))) ( -28.10)
>DroYak_CAF1 71641 109 - 1
AGC-------ACAUCAGCACAUCUUAUAAAAUUGAAUAACUUUAA-UUAAUUUUUUUCAGUGUUCUAGUUAACAUGCUGUGGCACAGACUCCUAAGCCACGAAGAAGCUGAGCUGAA
...-------...(((((...........(((((((....)))))-))........(((((.(((((((......)))(((((..((....))..)))))..)))))))))))))). ( -26.00)
>consensus
GGCUCUAGCAACCUUAGUGCAUCCUAUUAAAUA__CUAACAUUAAUUAAAUUUUGCUCAGUGCUCUAGUUAACAUGCUGUGGCAGUGGCUCCUAAGCCACGAAGAAGCUGAGCUGAA
......................................................((((((((((.((((......)))).))).((((((....))))))......))))))).... (-21.02 = -21.54 +   0.52)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:54:10 2006