Locus 4269

Sequence ID	2R_DroMel_CAF1
Location	14,078,966 – 14,079,124
Length	158
Max. P	0.990820

overview

Window 2

Location	14,078,966 – 14,079,084
Length	118
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	95.53
Mean single sequence MFE	-36.03
Consensus MFE	-34.82
Energy contribution	-35.27
Covariance contribution	0.45
Combinations/Pair	1.03
Mean z-score	-3.16
Structure conservation index	0.97
SVM decision value	2.23
SVM RNA-class probability	0.990820
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14078966 118 - 20766785
GGAGCUGGGACAUCGAUGAUGGCCACUAAGCGCAUUAAUUUAAUGCUCUCAACAGCUGGCCACGCCGUGCAUAAAUAAAAUGUCAUCGCAUACCAAACCGUUGCGUCUCAUUCCAU--CC
((((.((((((...(((((((((((((.((.((((((...)))))).))....)).)))))..((...))...........))))))(((.((......)))))))))))))))..--.. ( -36.80)
>DroSim_CAF1 3492 118 - 1
GGAGCUGGGACAUCGAUGAUGGCCACUAAGCGCAUUAAUUUAAUGCUCUCAACAGCUGGCCACGCCGUGCAUAAAUAAAAUGUCAUCGCAUACCAAUCCAUUGCGUCCCAUUCCAU--CC
((((.((((((..(((((.((((((((.((.((((((...)))))).))....)).)))))).((.((((((.......))).))).)).........))))).))))))))))..--.. ( -39.60)
>DroYak_CAF1 4181 120 - 1
GGACCUGGGACAUCGAUGAUGGCCACUAAGCGCAUUAAUUUAAUGCUCUCAACAGCUGGCCACGCCGUGCAUAAAUAAAAUGUCAUCGCAUACCAAUCCAUUGCAUCUCAUUCCGUCUCC
(((..(((((...(((((.((((((((.((.((((((...)))))).))....)).)))))).((.((((((.......))).))).)).........)))))..))))).)))...... ( -31.70)
>consensus
GGAGCUGGGACAUCGAUGAUGGCCACUAAGCGCAUUAAUUUAAUGCUCUCAACAGCUGGCCACGCCGUGCAUAAAUAAAAUGUCAUCGCAUACCAAUCCAUUGCGUCUCAUUCCAU__CC
((((.((((((...(((((((((((((.((.((((((...)))))).))....)).)))))..((...))...........))))))(((...........)))))))))))))...... (-34.82 = -35.27 +   0.45)

alignment

secondary structure

dotplot

Window 3

Location	14,079,004 – 14,079,124
Length	120
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	99.44
Mean single sequence MFE	-37.73
Consensus MFE	-34.93
Energy contribution	-35.27
Covariance contribution	0.33
Combinations/Pair	1.00
Mean z-score	-2.97
Structure conservation index	0.93
SVM decision value	1.42
SVM RNA-class probability	0.952584
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14079004 120 + 20766785
UUUUAUUUAUGCACGGCGUGGCCAGCUGUUGAGAGCAUUAAAUUAAUGCGCUUAGUGGCCAUCAUCGAUGUCCCAGCUCCGCGUCUGGCAAUUGAUAUUUUAAUCGCCAUUUCAUUUUGU
..............(((((((..((((((((((.((((((...)))))).))))).((.((((...)))).))))))))))))))((((.(((((....))))).))))........... ( -37.10)
>DroSim_CAF1 3530 120 + 1
UUUUAUUUAUGCACGGCGUGGCCAGCUGUUGAGAGCAUUAAAUUAAUGCGCUUAGUGGCCAUCAUCGAUGUCCCAGCUCCGCGUCUGGCAAUUGAUAUUUUAAUCGCCAUUUCAUUUUGU
..............(((((((..((((((((((.((((((...)))))).))))).((.((((...)))).))))))))))))))((((.(((((....))))).))))........... ( -37.10)
>DroYak_CAF1 4221 120 + 1
UUUUAUUUAUGCACGGCGUGGCCAGCUGUUGAGAGCAUUAAAUUAAUGCGCUUAGUGGCCAUCAUCGAUGUCCCAGGUCCGCGUCUGGCAAUUGAUAUUUUAAUCGCCAUUUCAUUUUGU
..............(((((((((.((..(((((.((((((...)))))).)))))..))((((...)))).....)).)))))))((((.(((((....))))).))))........... ( -39.00)
>consensus
UUUUAUUUAUGCACGGCGUGGCCAGCUGUUGAGAGCAUUAAAUUAAUGCGCUUAGUGGCCAUCAUCGAUGUCCCAGCUCCGCGUCUGGCAAUUGAUAUUUUAAUCGCCAUUUCAUUUUGU
..............(((((((..((((((((((.((((((...)))))).))))).((.((((...)))).))))))))))))))((((.(((((....))))).))))........... (-34.93 = -35.27 +   0.33)

alignment

secondary structure

dotplot

Window 4

Location	14,079,004 – 14,079,124
Length	120
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	99.44
Mean single sequence MFE	-31.97
Consensus MFE	-31.57
Energy contribution	-31.57
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-2.29
Structure conservation index	0.99
SVM decision value	1.36
SVM RNA-class probability	0.945788
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14079004 120 - 20766785
ACAAAAUGAAAUGGCGAUUAAAAUAUCAAUUGCCAGACGCGGAGCUGGGACAUCGAUGAUGGCCACUAAGCGCAUUAAUUUAAUGCUCUCAACAGCUGGCCACGCCGUGCAUAAAUAAAA
.....(((..((((((((......)))....(((((.(((..((.(((..((((...)))).)))))..))((((((...))))))........))))))...))))).)))........ ( -32.10)
>DroSim_CAF1 3530 120 - 1
ACAAAAUGAAAUGGCGAUUAAAAUAUCAAUUGCCAGACGCGGAGCUGGGACAUCGAUGAUGGCCACUAAGCGCAUUAAUUUAAUGCUCUCAACAGCUGGCCACGCCGUGCAUAAAUAAAA
.....(((..((((((((......)))....(((((.(((..((.(((..((((...)))).)))))..))((((((...))))))........))))))...))))).)))........ ( -32.10)
>DroYak_CAF1 4221 120 - 1
ACAAAAUGAAAUGGCGAUUAAAAUAUCAAUUGCCAGACGCGGACCUGGGACAUCGAUGAUGGCCACUAAGCGCAUUAAUUUAAUGCUCUCAACAGCUGGCCACGCCGUGCAUAAAUAAAA
.....(((..((((((.......((((.(((.((((........)))).).)).)))).((((((((.((.((((((...)))))).))....)).)))))))))))).)))........ ( -31.70)
>consensus
ACAAAAUGAAAUGGCGAUUAAAAUAUCAAUUGCCAGACGCGGAGCUGGGACAUCGAUGAUGGCCACUAAGCGCAUUAAUUUAAUGCUCUCAACAGCUGGCCACGCCGUGCAUAAAUAAAA
.....(((..((((((.......((((.(((.((((........)))).).)).)))).((((((((.((.((((((...)))))).))....)).)))))))))))).)))........ (-31.57 = -31.57 +  -0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:15:47 2006