Locus 5461

Sequence ID	X_DroMel_CAF1
Location	14,201,881 – 14,202,009
Length	128
Max. P	0.898215

overview

Window 5

Location	14,201,881 – 14,201,976
Length	95
Sequences	4
Columns	96
Reading direction	reverse
Mean pairwise identity	91.37
Mean single sequence MFE	-25.65
Consensus MFE	-22.33
Energy contribution	-23.08
Covariance contribution	0.75
Combinations/Pair	1.00
Mean z-score	-1.47
Structure conservation index	0.87
SVM decision value	0.23
SVM RNA-class probability	0.642504
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14201881 95 - 22224390
CAUUCGCAU-UCGCACAUCGCUCAUACGCCGUGUGGUACGCGCUGGCAAUCAACCUGCAAGUUGCCAGCCUAAUGUUUAAUUAAACAGCUCACCGU
.....((..-..))((((.((......)).))))(((..(((((((((((..........)))))))))....(((((....)))))))..))).. ( -26.70)
>DroSec_CAF1 111755 95 - 1
AAAUCGCAU-UCGCACAUCGCUCAUACGCCGUGUGGUGCGCGGUGGCAAUCGAGCUGCAAGUUGCCAGCCUAAUGUUUAAUUAAACAGCUCACCGU
.....((((-.(((((...((......)).)))))))))((((((((......(((((.....).))))....(((((....))))))).)))))) ( -30.00)
>DroEre_CAF1 100752 90 - 1
-----GCAU-UUGCACAUCGCUCAUACGCCGUGUGGUACGCGCUGGCAAUCAACCUGCAAGUUAGCAGCCUAAUGUUUAAUUAAACAGCUCACCGU
-----....-...(((((.((......)).)))))....(((.((((.......((((......)))).....(((((....))))))).)).))) ( -19.50)
>DroYak_CAF1 103045 91 - 1
-----GCACAUCGCACAUCGCUCAUACGCCGUGUGGUACGCGCUGGCAAUCAACCUGCAAGUUGCCAGCCUAAUGUUUAAUUAAACAGCUCACCGU
-----((.....))((((.((......)).))))(((..(((((((((((..........)))))))))....(((((....)))))))..))).. ( -26.40)
>consensus
_____GCAU_UCGCACAUCGCUCAUACGCCGUGUGGUACGCGCUGGCAAUCAACCUGCAAGUUGCCAGCCUAAUGUUUAAUUAAACAGCUCACCGU
.....((.....))((((.((......)).))))(((..(((((((((((..........)))))))))....(((((....)))))))..))).. (-22.33 = -23.08 +   0.75)

alignment

secondary structure

dotplot

Window 6

Location	14,201,897 – 14,202,009
Length	112
Sequences	4
Columns	113
Reading direction	forward
Mean pairwise identity	91.03
Mean single sequence MFE	-38.78
Consensus MFE	-29.90
Energy contribution	-30.15
Covariance contribution	0.25
Combinations/Pair	1.12
Mean z-score	-1.54
Structure conservation index	0.77
SVM decision value	-0.01
SVM RNA-class probability	0.529792
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14201897 112 + 22224390
UUAAACAUUAGGCUGGCAACUUGCAGGUUGAUUGCCAGCGCGUACCACACGGCGUAUGAGCGAUGUGCGA-AUGCGAAUGUGAAUGCGAAUGCCAGUAGUUGCGGUUGCCAGC
...........((((((((((.((((.(.....((...(((((..((((...(((((..((.....))..-)))))..)))).)))))...))....).)))))))))))))) ( -41.30)
>DroSec_CAF1 111771 112 + 1
UUAAACAUUAGGCUGGCAACUUGCAGCUCGAUUGCCACCGCGCACCACACGGCGUAUGAGCGAUGUGCGA-AUGCGAUUUCGAAUGCGAAUGCCAGUAGUUGCGGUUGCCAGC
...........((((((((((.((((((..((((.((...((((.((((..((......))..))))(((-(......))))..))))..)).)))))))))))))))))))) ( -42.10)
>DroEre_CAF1 100768 106 + 1
UUAAACAUUAGGCUGCUAACUUGCAGGUUGAUUGCCAGCGCGUACCACACGGCGUAUGAGCGAUGUGCAA-AUGC------GAAUGUGAAUGCCAGUAGUUGCGGCUGCCAGC
..........((((((.((((.((.(((...(..(...(((((..((((..((......))..))))...-))))------)...)..)..))).))))))))))))...... ( -31.50)
>DroYak_CAF1 103061 107 + 1
UUAAACAUUAGGCUGGCAACUUGCAGGUUGAUUGCCAGCGCGUACCACACGGCGUAUGAGCGAUGUGCGAUGUGC------GAAUGCGAAUGCCAGUAGUUGCGGUUGCCAGC
...........((((((((((.((((((...((((..((((((..((((..((......))..))))..))))))------....))))..)))......))))))))))))) ( -40.20)
>consensus
UUAAACAUUAGGCUGGCAACUUGCAGGUUGAUUGCCAGCGCGUACCACACGGCGUAUGAGCGAUGUGCGA_AUGC______GAAUGCGAAUGCCAGUAGUUGCGGUUGCCAGC
...........((((((((((.((((....(((((((..((((........)))).)).)))))(.(((...((((........))))..)))).....)))))))))))))) (-29.90 = -30.15 +   0.25)

alignment

secondary structure

dotplot

Window 7

Location	14,201,897 – 14,202,009
Length	112
Sequences	4
Columns	113
Reading direction	reverse
Mean pairwise identity	91.03
Mean single sequence MFE	-35.15
Consensus MFE	-30.51
Energy contribution	-31.08
Covariance contribution	0.56
Combinations/Pair	1.04
Mean z-score	-1.90
Structure conservation index	0.87
SVM decision value	1.00
SVM RNA-class probability	0.898215
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14201897 112 - 22224390
GCUGGCAACCGCAACUACUGGCAUUCGCAUUCACAUUCGCAU-UCGCACAUCGCUCAUACGCCGUGUGGUACGCGCUGGCAAUCAACCUGCAAGUUGCCAGCCUAAUGUUUAA
(((((((((.((.(((((((((....((..........))..-..((.....))......)))).)))))..))((.((.......)).))..)))))))))........... ( -35.10)
>DroSec_CAF1 111771 112 - 1
GCUGGCAACCGCAACUACUGGCAUUCGCAUUCGAAAUCGCAU-UCGCACAUCGCUCAUACGCCGUGUGGUGCGCGGUGGCAAUCGAGCUGCAAGUUGCCAGCCUAAUGUUUAA
((((((((((((.(((((((((.((((....))))...((..-..)).............)))).)))))..)))(..((......))..)..)))))))))........... ( -42.10)
>DroEre_CAF1 100768 106 - 1
GCUGGCAGCCGCAACUACUGGCAUUCACAUUC------GCAU-UUGCACAUCGCUCAUACGCCGUGUGGUACGCGCUGGCAAUCAACCUGCAAGUUAGCAGCCUAAUGUUUAA
((..((.((((.......))))..........------((..-...(((((.((......)).)))))....))))..)).......((((......))))............ ( -27.40)
>DroYak_CAF1 103061 107 - 1
GCUGGCAACCGCAACUACUGGCAUUCGCAUUC------GCACAUCGCACAUCGCUCAUACGCCGUGUGGUACGCGCUGGCAAUCAACCUGCAAGUUGCCAGCCUAAUGUUUAA
(((((((((.((.(((((((((....((....------)).....((.....))......)))).)))))..))((.((.......)).))..)))))))))........... ( -36.00)
>consensus
GCUGGCAACCGCAACUACUGGCAUUCGCAUUC______GCAU_UCGCACAUCGCUCAUACGCCGUGUGGUACGCGCUGGCAAUCAACCUGCAAGUUGCCAGCCUAAUGUUUAA
((((((((((((.(((((((((....((..........)).....((.....))......)))).)))))..)))...(((.......)))..)))))))))........... (-30.51 = -31.08 +   0.56)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:48:28 2006