Locus 7995

Sequence ID	3L_DroMel_CAF1
Location	21,116,377 – 21,116,497
Length	120
Max. P	0.999798

overview

Window 9

Location	21,116,377 – 21,116,497
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	96.92
Mean single sequence MFE	-44.56
Consensus MFE	-41.48
Energy contribution	-42.48
Covariance contribution	1.00
Combinations/Pair	1.00
Mean z-score	-2.70
Structure conservation index	0.93
SVM decision value	4.10
SVM RNA-class probability	0.999798
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21116377 120 + 23771897
GAGAAGCAGCGGAACUGCAUCAGUGGGGGAGGAAGCUCUACCAAGAACUCCUCCGCGGCAUCGUCGUCAUGAUUGCGGGAGCCCUUAAUAGGAUUCCUGCAUCAGCACCACCACAAACAA
..((.((((.....)))).)).((((.((((((.(.(((....))).)))))))(((((......))).((((.((((((..(((....)))..))))))))))))....))))...... ( -46.90)
>DroSec_CAF1 166977 120 + 1
GAGAAGCAGCGGAACUGCAUCAGUGGGGGAGGAAGCUCUACCAAGAACUCCUCCGCGGCAUCGUCGUCAUGAUUGCGGGAGCCCUUAAUAGGAUUCCUGCAUCAGCACCACCACAAACAA
..((.((((.....)))).)).((((.((((((.(.(((....))).)))))))(((((......))).((((.((((((..(((....)))..))))))))))))....))))...... ( -46.90)
>DroSim_CAF1 78686 120 + 1
GAGAAGCAGCGGAACUGCAUCAGUGGGGGAGGAAGCUCUACCAAGAACUCCUCCGCGGCAUCGUCGUCAUGAUUGCGGGAGCCCUUAAUAGGAUUCCUGCAUCAGCACCACCACAAACAA
..((.((((.....)))).)).((((.((((((.(.(((....))).)))))))(((((......))).((((.((((((..(((....)))..))))))))))))....))))...... ( -46.90)
>DroEre_CAF1 89502 120 + 1
GAAAAGCAGCGGAACUGCAUCAGUGGCGGCGGAAGCUCCACAAAGAACUCCUCCGCGGCAUCGUCGUCAUGAUUGCGGGAGCCCUUGAUAGGAUUCCUGCAUCAGCACCACCACAAACAA
.....((.(((((.........((((.(((....)))))))..........)))))(((......))).((((.((((((..(((....)))..)))))))))))).............. ( -41.01)
>DroYak_CAF1 60355 120 + 1
GAGAAGCAGCGGAACUGCAUCAGUGGCGGCGGAAGCUCUACGAAAAACUCCUCCGCGGCAUCGUCGUCAUGAUUGCGGGAGCCCUUGAUAGGAUUCCUGCAUCAGCACCACCACAAACAA
..((.((.(((((.........((((.(((....)))))))..........))))).)).))((.((..((((.((((((..(((....)))..))))))))))..)).))......... ( -41.11)
>consensus
GAGAAGCAGCGGAACUGCAUCAGUGGGGGAGGAAGCUCUACCAAGAACUCCUCCGCGGCAUCGUCGUCAUGAUUGCGGGAGCCCUUAAUAGGAUUCCUGCAUCAGCACCACCACAAACAA
..((.((((.....)))).)).((((.((((((.(.(((....))).)))))))(((((......))).((((.((((((..(((....)))..))))))))))))....))))...... (-41.48 = -42.48 +   1.00)

alignment

secondary structure

dotplot

Window 0

Location	21,116,377 – 21,116,497
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	96.92
Mean single sequence MFE	-45.84
Consensus MFE	-43.60
Energy contribution	-43.52
Covariance contribution	-0.08
Combinations/Pair	1.07
Mean z-score	-1.77
Structure conservation index	0.95
SVM decision value	2.34
SVM RNA-class probability	0.992626
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21116377 120 - 23771897
UUGUUUGUGGUGGUGCUGAUGCAGGAAUCCUAUUAAGGGCUCCCGCAAUCAUGACGACGAUGCCGCGGAGGAGUUCUUGGUAGAGCUUCCUCCCCCACUGAUGCAGUUCCGCUGCUUCUC
......(..((((.((((.(((.(((..(((....)))..))).)))((((((..(.((....)))(((((((((((....))))).))))))..)).)))).)))).))))..)..... ( -45.50)
>DroSec_CAF1 166977 120 - 1
UUGUUUGUGGUGGUGCUGAUGCAGGAAUCCUAUUAAGGGCUCCCGCAAUCAUGACGACGAUGCCGCGGAGGAGUUCUUGGUAGAGCUUCCUCCCCCACUGAUGCAGUUCCGCUGCUUCUC
......(..((((.((((.(((.(((..(((....)))..))).)))((((((..(.((....)))(((((((((((....))))).))))))..)).)))).)))).))))..)..... ( -45.50)
>DroSim_CAF1 78686 120 - 1
UUGUUUGUGGUGGUGCUGAUGCAGGAAUCCUAUUAAGGGCUCCCGCAAUCAUGACGACGAUGCCGCGGAGGAGUUCUUGGUAGAGCUUCCUCCCCCACUGAUGCAGUUCCGCUGCUUCUC
......(..((((.((((.(((.(((..(((....)))..))).)))((((((..(.((....)))(((((((((((....))))).))))))..)).)))).)))).))))..)..... ( -45.50)
>DroEre_CAF1 89502 120 - 1
UUGUUUGUGGUGGUGCUGAUGCAGGAAUCCUAUCAAGGGCUCCCGCAAUCAUGACGACGAUGCCGCGGAGGAGUUCUUUGUGGAGCUUCCGCCGCCACUGAUGCAGUUCCGCUGCUUUUC
..(((.((((((((((....)).((((.(((((.((((((((((((.(((........)))...)))..))))))))).)))).).)))))))))))).)))((((.....))))..... ( -47.20)
>DroYak_CAF1 60355 120 - 1
UUGUUUGUGGUGGUGCUGAUGCAGGAAUCCUAUCAAGGGCUCCCGCAAUCAUGACGACGAUGCCGCGGAGGAGUUUUUCGUAGAGCUUCCGCCGCCACUGAUGCAGUUCCGCUGCUUCUC
......((((((((((....)).((((.(((((.((((((((((((.(((........)))...)))..))))))))).)))).).)))))))))))).((.((((.....)))).)).. ( -45.50)
>consensus
UUGUUUGUGGUGGUGCUGAUGCAGGAAUCCUAUUAAGGGCUCCCGCAAUCAUGACGACGAUGCCGCGGAGGAGUUCUUGGUAGAGCUUCCUCCCCCACUGAUGCAGUUCCGCUGCUUCUC
......((((.(((((....)))((((.((((((((((((((((((.(((........)))...)))..)))))))))))))).).)))).)).)))).((.((((.....)))).)).. (-43.60 = -43.52 +  -0.08)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:03:12 2006