Locus 4103

Sequence ID	2R_DroMel_CAF1
Location	13,497,977 – 13,498,072
Length	95
Max. P	0.903309

overview

Window 1

Location	13,497,977 – 13,498,072
Length	95
Sequences	6
Columns	95
Reading direction	forward
Mean pairwise identity	90.25
Mean single sequence MFE	-20.67
Consensus MFE	-15.60
Energy contribution	-16.43
Covariance contribution	0.83
Combinations/Pair	1.00
Mean z-score	-2.92
Structure conservation index	0.75
SVM decision value	0.02
SVM RNA-class probability	0.545647
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 13497977 95 + 20766785
AAAUGGAGCUCAAUUCAGCGGAAAUGCAUAUUAAGUGCAAUUACUGCAUAAUUAACCAGUGAUUCUGCAAUCACUAAUUGCAACCCACACCAAAA
...(((.(((......)))((...((((......(((((.....)))))........(((((((....)))))))...))))..))...)))... ( -20.90)
>DroSec_CAF1 46486 95 + 1
AAAUCAAGCUCAAUUCAGCGGAAAUGCAUAUUAAGUGCAAUUACUGCAUAAUUAACCAGUGAUUCUGCAAUCACUAAUUGCAACUCACACCGAAU
............((((.((((((.(((((.....))))).)).))))...........((((...((((((.....))))))..))))...)))) ( -21.20)
>DroSim_CAF1 46773 95 + 1
AAAUGGAGCUCGAUUCAGCGGAAAUGCAUAUUAAGUGCAAUUACUGCAUAAUUAACCAGUGAUUCUGCAAUCACUAAUUGCAACUCACACCGAAU
...(((...........((((((.(((((.....))))).)).))))...........((((...((((((.....))))))..)))).)))... ( -21.90)
>DroEre_CAF1 47672 95 + 1
AAAUUGAGCUCAAUUCAGCGGAAAUGCAUAUUAAGUGCUAUUACUGCAUAAUUAACCAGUGAUUCUGCAAUCACUAAUUGCAACUCACACUGAAU
.(((((....)))))..((((.(((((((.....)))).))).)))).........(((((....((((((.....)))))).....)))))... ( -21.70)
>DroYak_CAF1 48906 95 + 1
AAAUUGAGCUCAAUUCAGCGGAAAUGCAUAUUAAGUGCAAUUACUGCAUAAUUAACCAGUGAUUCUGCAAUCACUAAUUGCAACCCACACUGAGU
.(((((....)))))..((((((.(((((.....))))).)).)))).......(((((((....((((((.....)))))).....))))).)) ( -22.50)
>DroAna_CAF1 48306 89 + 1
UAAUAGAGCUCAAUUCAGCGGAAAUGCAUAUUAAGUGCAAUUACUGCAUAAUUAACCAGGCACUUAAAAAACACUAAUUGCAACUCUCU------
....((((.........((((((.(((((.....))))).)).))))............(((.(((........))).)))..))))..------ ( -15.80)
>consensus
AAAUGGAGCUCAAUUCAGCGGAAAUGCAUAUUAAGUGCAAUUACUGCAUAAUUAACCAGUGAUUCUGCAAUCACUAAUUGCAACUCACACCGAAU
.......((........((((((.(((((.....))))).)).))))..........(((((((....)))))))....)).............. (-15.60 = -16.43 +   0.83)

alignment

secondary structure

dotplot

Window 2

Location	13,497,977 – 13,498,072
Length	95
Sequences	6
Columns	95
Reading direction	reverse
Mean pairwise identity	90.25
Mean single sequence MFE	-25.52
Consensus MFE	-21.12
Energy contribution	-22.32
Covariance contribution	1.20
Combinations/Pair	1.14
Mean z-score	-2.57
Structure conservation index	0.83
SVM decision value	1.03
SVM RNA-class probability	0.903309
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 13497977 95 - 20766785
UUUUGGUGUGGGUUGCAAUUAGUGAUUGCAGAAUCACUGGUUAAUUAUGCAGUAAUUGCACUUAAUAUGCAUUUCCGCUGAAUUGAGCUCCAUUU
.((..(((.(((.((((((((((((((....))))))))))).....(((((...)))))........))).))))))..))............. ( -23.50)
>DroSec_CAF1 46486 95 - 1
AUUCGGUGUGAGUUGCAAUUAGUGAUUGCAGAAUCACUGGUUAAUUAUGCAGUAAUUGCACUUAAUAUGCAUUUCCGCUGAAUUGAGCUUGAUUU
((((((((.(((.((((((((((((((....))))))))))).....(((((...)))))........))).)))))))))))............ ( -27.30)
>DroSim_CAF1 46773 95 - 1
AUUCGGUGUGAGUUGCAAUUAGUGAUUGCAGAAUCACUGGUUAAUUAUGCAGUAAUUGCACUUAAUAUGCAUUUCCGCUGAAUCGAGCUCCAUUU
((((((((.(((.((((((((((((((....))))))))))).....(((((...)))))........))).)))))))))))............ ( -27.30)
>DroEre_CAF1 47672 95 - 1
AUUCAGUGUGAGUUGCAAUUAGUGAUUGCAGAAUCACUGGUUAAUUAUGCAGUAAUAGCACUUAAUAUGCAUUUCCGCUGAAUUGAGCUCAAUUU
((((((((.(((.((((((((((((((....))))))))))).....(((.......)))........))).)))))))))))............ ( -27.10)
>DroYak_CAF1 48906 95 - 1
ACUCAGUGUGGGUUGCAAUUAGUGAUUGCAGAAUCACUGGUUAAUUAUGCAGUAAUUGCACUUAAUAUGCAUUUCCGCUGAAUUGAGCUCAAUUU
.(((((((((((.((((((((((((((....))))))))))).....(((((...)))))........)))..)))))...))))))........ ( -26.90)
>DroAna_CAF1 48306 89 - 1
------AGAGAGUUGCAAUUAGUGUUUUUUAAGUGCCUGGUUAAUUAUGCAGUAAUUGCACUUAAUAUGCAUUUCCGCUGAAUUGAGCUCUAUUA
------..((((((.(((((((((......((((((...(((((...(((((...))))).)))))..)))))).))))).)))))))))).... ( -21.00)
>consensus
AUUCGGUGUGAGUUGCAAUUAGUGAUUGCAGAAUCACUGGUUAAUUAUGCAGUAAUUGCACUUAAUAUGCAUUUCCGCUGAAUUGAGCUCAAUUU
.(((((((.(((.((((((((((((((....))))))))))).....(((((...)))))........))).))))))))))............. (-21.12 = -22.32 +   1.20)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:11:55 2006