Locus 7701

Sequence ID	3L_DroMel_CAF1
Location	20,601,846 – 20,602,006
Length	160
Max. P	0.748517

overview

Window 1

Location	20,601,846 – 20,601,966
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	87.17
Mean single sequence MFE	-29.06
Consensus MFE	-20.63
Energy contribution	-21.91
Covariance contribution	1.28
Combinations/Pair	1.07
Mean z-score	-2.05
Structure conservation index	0.71
SVM decision value	0.47
SVM RNA-class probability	0.748517
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20601846 120 + 23771897
CAAUGGGCAUCUUUAGUGUCCAUCACCCAGCUAAUCCCCAUCUGUUAAACUUCCUUUUUGUUCCUCCUGUUUUCUUUGGAGUGCUCAAUGAAGUUUGUUCUUUGGUGGCUGUCAAUUACG
..((((((((.....))))))))....((((((....(((.....((((((((....(((..(((((..........)))).)..))).)))))))).....)))))))))......... ( -31.50)
>DroSec_CAF1 46730 120 + 1
CAAUGGGCAUCUUCAGUGUCCAUCACCCGGCUAAUCCCCAUCUGUUAAACUUCCUUUUUGUUCCUCCUGUUUUGUUUGGAGAGCUCAAUGAAGUUUGUUCUUUGGUGGCUGUCAAUUACG
..((((((((.....))))))))....((((((....(((.....((((((((..((..((((.(((..........)))))))..)).)))))))).....)))))))))......... ( -31.20)
>DroAna_CAF1 68752 108 + 1
UAAUAGGCAUCUACAGAGUCCAUCACUCU-UAAAUCUCCUUC--UUAAACUUCCUU-------CUCCCAUUUU-UUCGGAGU-CUCAAUGAAGUUUGUUCUUUGGUGGCUGCCAAUUACA
((((.((((.(((((((((.....)))))-............--.((((((((...-------((((......-...)))).-......)))))))).......)))).)))).)))).. ( -24.70)
>DroSim_CAF1 41524 120 + 1
CAAUGGGCAUCUUCAGUGUCCAUCACCCGGCUAAUCCCCAUCUGUUAAACUUCCUUUUUGUUCCUCCUGUUUUCUUUGGAGAGCUCAAUGAAGUUUGUUCUUUGGUGGCUGUCAAUUACG
..((((((((.....))))))))....((((((....(((.....((((((((..((..((((.(((..........)))))))..)).)))))))).....)))))))))......... ( -31.20)
>DroEre_CAF1 39142 120 + 1
CAAUGGGCAUCUUUAGGGUCCAUCAGCCAGCUAAUCGCCAUCCGUUAAACUGCCCUUUUGUUCCUCCCGUUUUCUUUGGAGUGCUGAAUGAAGUUUGUUCUUUGGUGGCUGUCAAUUACG
..((((((.((....))))))))..(.((((....(((((.....((((((..(.(((.((..((((.(......).)))).)).))).).)))))).....))))))))).)....... ( -26.70)
>consensus
CAAUGGGCAUCUUCAGUGUCCAUCACCCAGCUAAUCCCCAUCUGUUAAACUUCCUUUUUGUUCCUCCUGUUUUCUUUGGAGUGCUCAAUGAAGUUUGUUCUUUGGUGGCUGUCAAUUACG
..((((((((.....))))))))....((((((....(((.....((((((((..........((((..........))))........)))))))).....)))))))))......... (-20.63 = -21.91 +   1.28)

alignment

secondary structure

dotplot

Window 2

Location	20,601,886 – 20,602,006
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	91.83
Mean single sequence MFE	-29.76
Consensus MFE	-27.24
Energy contribution	-26.76
Covariance contribution	-0.48
Combinations/Pair	1.10
Mean z-score	-1.24
Structure conservation index	0.92
SVM decision value	0.43
SVM RNA-class probability	0.732929
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20601886 120 + 23771897
UCUGUUAAACUUCCUUUUUGUUCCUCCUGUUUUCUUUGGAGUGCUCAAUGAAGUUUGUUCUUUGGUGGCUGUCAAUUACGGCGAGUGUUGUUAUUGUUCUGUCACGUAAUGAGCAGGCAA
..(((((((((((....(((..(((((..........)))).)..))).)))))))((((.((((((((...((((.(((((....))))).))))....))))).))).)))).)))). ( -31.10)
>DroSec_CAF1 46770 120 + 1
UCUGUUAAACUUCCUUUUUGUUCCUCCUGUUUUGUUUGGAGAGCUCAAUGAAGUUUGUUCUUUGGUGGCUGUCAAUUACGGCGAGUGUUGUUAUUGUUCUGUCACGUAAUGAGCAGGCAA
..(((((((((((..((..((((.(((..........)))))))..)).)))))))((((.((((((((...((((.(((((....))))).))))....))))).))).)))).)))). ( -31.50)
>DroAna_CAF1 68791 109 + 1
UC--UUAAACUUCCUU-------CUCCCAUUUU-UUCGGAGU-CUCAAUGAAGUUUGUUCUUUGGUGGCUGCCAAUUACAGUGAGUGUUGUUAUUGUUCUGUCACGUAAUGAGCAGACAA
..--............-------((((......-...)))).-.........((((((((.((((((((...((((.((((......)))).))))....))))).))).)))))))).. ( -24.20)
>DroSim_CAF1 41564 120 + 1
UCUGUUAAACUUCCUUUUUGUUCCUCCUGUUUUCUUUGGAGAGCUCAAUGAAGUUUGUUCUUUGGUGGCUGUCAAUUACGGCGAGUGUUGUUAUUGUUCUGUCACGUAAUGAGCAGGCAA
..(((((((((((..((..((((.(((..........)))))))..)).)))))))((((.((((((((...((((.(((((....))))).))))....))))).))).)))).)))). ( -31.50)
>DroEre_CAF1 39182 120 + 1
UCCGUUAAACUGCCCUUUUGUUCCUCCCGUUUUCUUUGGAGUGCUGAAUGAAGUUUGUUCUUUGGUGGCUGUCAAUUACGGCGAGUGUUGUUAUUGUUCUGUCACGUAAUGAGCAGGCAA
..........((((.(((..(((((((.(......).))))....)))..)))..(((((.((((((((...((((.(((((....))))).))))....))))).))).))))))))). ( -30.50)
>consensus
UCUGUUAAACUUCCUUUUUGUUCCUCCUGUUUUCUUUGGAGUGCUCAAUGAAGUUUGUUCUUUGGUGGCUGUCAAUUACGGCGAGUGUUGUUAUUGUUCUGUCACGUAAUGAGCAGGCAA
.......................((((..........))))...........((((((((.((((((((...((((.(((((....))))).))))....))))).))).)))))))).. (-27.24 = -26.76 +  -0.48)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:54:19 2006