Locus 361

Sequence ID	3R_DroMel_CAF1
Location	1,397,077 – 1,397,458
Length	381
Max. P	0.973527

overview

Window 4

Location	1,397,077 – 1,397,192
Length	115
Sequences	4
Columns	119
Reading direction	forward
Mean pairwise identity	93.40
Mean single sequence MFE	-28.40
Consensus MFE	-23.79
Energy contribution	-24.72
Covariance contribution	0.94
Combinations/Pair	1.12
Mean z-score	-2.49
Structure conservation index	0.84
SVM decision value	1.26
SVM RNA-class probability	0.937860
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1397077 115 + 27905053
UGUGU----GUGUAUACUUGUGCGCAAUGCGUGGGUAUUUUCUCAGUUUUUUGUUCUAUUUUCAAAUUUUAUUGCUCUCGCAUAAUGGUAUACAUAUGUACAUCAUUAUGUUUGACCGU
..((.----(...(((((..(((.....)))..)))))...).))............................(.((..((((((((((.(((....))).))))))))))..)).).. ( -24.90)
>DroSec_CAF1 1978 119 + 1
UGUGUGUAUGUGUAUACUUGUGCGCAAUGCGUGGGUAUUUUCUCAGUUUUUUGUUCUAUUUUCAAAUUUUAUUGCUCUCGCAUAAUAGUAUACAUAUGUACAGCAUUAUGUUUGACCGU
((((((((((((((((((((((((....(((((((......))))....((((.........))))......)))...))))))..)))))))))))))))).)).............. ( -28.00)
>DroSim_CAF1 1977 119 + 1
UGUGUGUAUGUGUAUACUUGUGCGCAAUGCGUGGGUAUUUUCUCAGUUUUUCGUUCUAUUUUCAAAUUUUAUUGCUCUCGCAUAAUAGUAUACAUAUGUACAGCAUUAUGUUUGACCGU
((((((((((((((((((((((((....(((((((......))))(.....)....................)))...))))))..)))))))))))))))).)).............. ( -26.50)
>DroYak_CAF1 1935 117 + 1
UGUGUG--UGUGUAUACUUGUGCGCUAUGCGUGGGUAUUUUCACAGUUUUUCGUUCUAUUUUAAAAUUUUAUUGCUAUCGCACAAUAGUAUACACAUGUACAACACUAUGUUUGACCGU
((((..--((((((((((((((((.((.(((((((....)))))((((((............)))))).....)))).))))))..))))))))))..))))................. ( -34.20)
>consensus
UGUGUG__UGUGUAUACUUGUGCGCAAUGCGUGGGUAUUUUCUCAGUUUUUCGUUCUAUUUUCAAAUUUUAUUGCUCUCGCAUAAUAGUAUACAUAUGUACAGCAUUAUGUUUGACCGU
((((((((((((((((((((((((....(((((((......))))(.....)....................)))...))))))..)))))))))))))))).)).............. (-23.79 = -24.72 +   0.94)

alignment

secondary structure

dotplot

Window 5

Location	1,397,077 – 1,397,192
Length	115
Sequences	4
Columns	119
Reading direction	reverse
Mean pairwise identity	93.40
Mean single sequence MFE	-19.18
Consensus MFE	-15.06
Energy contribution	-14.50
Covariance contribution	-0.56
Combinations/Pair	1.13
Mean z-score	-1.68
Structure conservation index	0.79
SVM decision value	-0.07
SVM RNA-class probability	0.500000
Prediction	OTHER

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1397077 115 - 27905053
ACGGUCAAACAUAAUGAUGUACAUAUGUAUACCAUUAUGCGAGAGCAAUAAAAUUUGAAAAUAGAACAAAAAACUGAGAAAAUACCCACGCAUUGCGCACAAGUAUACAC----ACACA
.((((.....((((((.(((((....))))).))))))((....))..........................)))).....((((....((.....))....))))....----..... ( -16.40)
>DroSec_CAF1 1978 119 - 1
ACGGUCAAACAUAAUGCUGUACAUAUGUAUACUAUUAUGCGAGAGCAAUAAAAUUUGAAAAUAGAACAAAAAACUGAGAAAAUACCCACGCAUUGCGCACAAGUAUACACAUACACACA
((((.((.......)))))).....((((((((....(((....)))..........................................((.....))...)))))))).......... ( -16.50)
>DroSim_CAF1 1977 119 - 1
ACGGUCAAACAUAAUGCUGUACAUAUGUAUACUAUUAUGCGAGAGCAAUAAAAUUUGAAAAUAGAACGAAAAACUGAGAAAAUACCCACGCAUUGCGCACAAGUAUACACAUACACACA
((((.((.......)))))).....((((((((....(((....)))..........................................((.....))...)))))))).......... ( -16.50)
>DroYak_CAF1 1935 117 - 1
ACGGUCAAACAUAGUGUUGUACAUGUGUAUACUAUUGUGCGAUAGCAAUAAAAUUUUAAAAUAGAACGAAAAACUGUGAAAAUACCCACGCAUAGCGCACAAGUAUACACA--CACACA
.............((((.((....(((((((((..((((((.((((......(((((...((((.........)))).)))))......)).)).))))))))))))))))--))))). ( -27.30)
>consensus
ACGGUCAAACAUAAUGCUGUACAUAUGUAUACUAUUAUGCGAGAGCAAUAAAAUUUGAAAAUAGAACAAAAAACUGAGAAAAUACCCACGCAUUGCGCACAAGUAUACACA__CACACA
.((((.....((((((.(((((....))))).))))))((....))..........................)))).....((((....((.....))....))))............. (-15.06 = -14.50 +  -0.56)

alignment

secondary structure

dotplot

Window 6

Location	1,397,112 – 1,397,223
Length	111
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	87.55
Mean single sequence MFE	-20.68
Consensus MFE	-14.84
Energy contribution	-14.40
Covariance contribution	-0.44
Combinations/Pair	1.21
Mean z-score	-1.83
Structure conservation index	0.72
SVM decision value	0.40
SVM RNA-class probability	0.720053
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1397112 111 - 27905053
AAAAAACUCGCGGUGUU-------GGAG--AUUCGAAAUAACGGUCAAACAUAAUGAUGUACAUAUGUAUACCAUUAUGCGAGAGCAAUAAAAUUUGAAAAUAGAACAAAAAACUGAGAA
.......((.((((.((-------(.(.--.((((((.............((((((.(((((....))))).))))))((....)).......))))))..)....)))...)))).)). ( -21.00)
>DroSec_CAF1 2017 113 - 1
AAAAAACUCGCGGUGUU-------GGAGAAAUUCGAAAUAACGGUCAAACAUAAUGCUGUACAUAUGUAUACUAUUAUGCGAGAGCAAUAAAAUUUGAAAAUAGAACAAAAAACUGAGAA
......(((.((...((-------(((....))))).....)).(((((.((((((.(((((....))))).))))))((....)).......))))).................))).. ( -20.80)
>DroSim_CAF1 2016 113 - 1
AAAAAACUCGCGGUGUU-------GGAGAAAUUCGAAAUAACGGUCAAACAUAAUGCUGUACAUAUGUAUACUAUUAUGCGAGAGCAAUAAAAUUUGAAAAUAGAACGAAAAACUGAGAA
......(((.((...((-------(((....))))).....)).(((((.((((((.(((((....))))).))))))((....)).......))))).................))).. ( -20.80)
>DroYak_CAF1 1972 118 - 1
AA--AACUCGCGAUUGUCAUGUGCAGCGAAAUUUCAAUUAACGGUCAAACAUAGUGUUGUACAUGUGUAUACUAUUGUGCGAUAGCAAUAAAAUUUUAAAAUAGAACGAAAAACUGUGAA
..--...(((((.....((((((((((((....)).......(......).....))))))))))......(((((.(((....)))............)))))..........))))). ( -20.12)
>consensus
AAAAAACUCGCGGUGUU_______GGAGAAAUUCGAAAUAACGGUCAAACAUAAUGCUGUACAUAUGUAUACUAUUAUGCGAGAGCAAUAAAAUUUGAAAAUAGAACAAAAAACUGAGAA
......(((((.............(((....)))................((((((.(((((....))))).)))))))))))..................................... (-14.84 = -14.40 +  -0.44)

alignment

secondary structure

dotplot

Window 7

Location	1,397,223 – 1,397,343
Length	120
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	91.81
Mean single sequence MFE	-32.25
Consensus MFE	-26.01
Energy contribution	-26.20
Covariance contribution	0.19
Combinations/Pair	1.09
Mean z-score	-1.60
Structure conservation index	0.81
SVM decision value	0.16
SVM RNA-class probability	0.611969
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1397223 120 - 27905053
GUGCAUUGCACCUGAUUAGCGGGUUGUAAGUGCAGUUGUACAAACAUGCCUAUCCACAUACAUAUGUACAUACAAAUGUAUAGAGAUUGCUUACAAAUCGUGAGUGGGAAAUGCCGUCAC
(.(((((...((((....(((..((((((((((((((.....))).)))..(((...((((((.(((....))).))))))...))).))))))))..)))...)))).))))))..... ( -31.80)
>DroSec_CAF1 2130 116 - 1
GUGCAUUGCACCUGAUUAGCGGGUUGUAAGUGCAGUUGUGCAAACAUGCCUAUCCACA----UAUGUACAUACAAAUGUACAGAGAUGGCUUACAAAUCGGGACUGGGAAAUGCCGUCAC
(.(((((...(((..((..((..((((((((((((((.....))).))).......((----(.(((((((....)))))))...)))))))))))..)).))..))).))))))..... ( -33.50)
>DroSim_CAF1 2129 116 - 1
GUGCAUUGCACCUGAUUAGCGGGUUGUAAGUGCAGUUGUACAAACAUGCCUAUCCACA----UAUGUACAUACAAAUGUACAGAGAUGGCUUACAAAUCGGGACUGGGAAAUGCCGUCAC
(.(((((...(((..((..((..((((((((((((((.....))).))).......((----(.(((((((....)))))))...)))))))))))..)).))..))).))))))..... ( -33.50)
>DroYak_CAF1 2090 116 - 1
GUACAUUGCACCUGAUUAGCGGGUUGUAAGUGCAGUUGUACAAACAUACCUAUCCACA----UAUGUACACUUGUAUGUACAUAAAUUGCUUACAAAUCGGGACUGGUAAAUGCCGUCAC
..........(((((((((((((((((..((((....))))..))).)))).......----((((((((......))))))))....)))....)))))))...(((....)))..... ( -30.20)
>consensus
GUGCAUUGCACCUGAUUAGCGGGUUGUAAGUGCAGUUGUACAAACAUGCCUAUCCACA____UAUGUACAUACAAAUGUACAGAGAUGGCUUACAAAUCGGGACUGGGAAAUGCCGUCAC
..(((((.(((((((((((((((((((..((((....))))..))).)))).............(((((((....)))))))......)))....)))))))..))...)))))...... (-26.01 = -26.20 +   0.19)

alignment

secondary structure

dotplot

Window 8

Location	1,397,263 – 1,397,379
Length	116
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	90.09
Mean single sequence MFE	-28.75
Consensus MFE	-23.19
Energy contribution	-22.25
Covariance contribution	-0.94
Combinations/Pair	1.16
Mean z-score	-2.13
Structure conservation index	0.81
SVM decision value	1.01
SVM RNA-class probability	0.899905
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1397263 116 + 27905053
UACAUUUGUAUGUACAUAUGUAUGUGGAUAGGCAUGUUUGUACAACUGCACUUACAACCCGCUAAUCAGGUGCAAUGCACAUA----CAUUCAUCGAUUCCGACUCGGAAUCCCAAUCGG
......(((((((.(((.(((((.(((.((((..(((..((.(....).))..)))...).))).))).)))))))).)))))----))......(((((((...)))))))........ ( -28.90)
>DroSec_CAF1 2170 112 + 1
UACAUUUGUAUGUACAUA----UGUGGAUAGGCAUGUUUGCACAACUGCACUUACAACCCGCUAAUCAGGUGCAAUGCACAUA----CAUCCAUCGAUUCCGAUUCGGAAUCCCAAUCGG
......(((((((.(((.----((..((((....))))..))....(((((((..............)))))))))).)))))----))......(((((((...)))))))........ ( -29.04)
>DroSim_CAF1 2169 112 + 1
UACAUUUGUAUGUACAUA----UGUGGAUAGGCAUGUUUGUACAACUGCACUUACAACCCGCUAAUCAGGUGCAAUGCACAUA----CAUCCAUCGAUUCCGAUUCGGAAUCCCAAUCGG
(((((.(((....))).)----))))(((.((.((((.(((.((..(((((((..............))))))).)).))).)----))))))))(((((((...)))))))........ ( -29.14)
>DroYak_CAF1 2130 112 + 1
UACAUACAAGUGUACAUA----UGUGGAUAGGUAUGUUUGUACAACUGCACUUACAACCCGCUAAUCAGGUGCAAUGUACAUAUAAACAUCCAUCGAUUCCGAUUCGGAAUUCCAA----
(((((....)))))....----..((((..((.(((((((((((..(((((((..............))))))).))))))....)))))))....((((((...)))))))))).---- ( -27.94)
>consensus
UACAUUUGUAUGUACAUA____UGUGGAUAGGCAUGUUUGUACAACUGCACUUACAACCCGCUAAUCAGGUGCAAUGCACAUA____CAUCCAUCGAUUCCGAUUCGGAAUCCCAAUCGG
(((((....))))).........((((((.((..(((.((((....))))...)))..)).........((((...))))........)))))).(((((((...)))))))........ (-23.19 = -22.25 +  -0.94)

alignment

secondary structure

dotplot

Window 9

Location	1,397,263 – 1,397,379
Length	116
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	90.09
Mean single sequence MFE	-34.10
Consensus MFE	-27.33
Energy contribution	-27.70
Covariance contribution	0.37
Combinations/Pair	1.05
Mean z-score	-2.40
Structure conservation index	0.80
SVM decision value	1.28
SVM RNA-class probability	0.939292
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1397263 116 - 27905053
CCGAUUGGGAUUCCGAGUCGGAAUCGAUGAAUG----UAUGUGCAUUGCACCUGAUUAGCGGGUUGUAAGUGCAGUUGUACAAACAUGCCUAUCCACAUACAUAUGUACAUACAAAUGUA
((((((.((...)).))))))..........((----(((((((((((((((((.....)))).))))((.((((((.....))).)))))............)))))))))))...... ( -35.10)
>DroSec_CAF1 2170 112 - 1
CCGAUUGGGAUUCCGAAUCGGAAUCGAUGGAUG----UAUGUGCAUUGCACCUGAUUAGCGGGUUGUAAGUGCAGUUGUGCAAACAUGCCUAUCCACA----UAUGUACAUACAAAUGUA
((((((.((...)).))))))..........((----(((((((((((((((((.....)))).))))((.((((((.....))).))))).......----.)))))))))))...... ( -35.10)
>DroSim_CAF1 2169 112 - 1
CCGAUUGGGAUUCCGAAUCGGAAUCGAUGGAUG----UAUGUGCAUUGCACCUGAUUAGCGGGUUGUAAGUGCAGUUGUACAAACAUGCCUAUCCACA----UAUGUACAUACAAAUGUA
((((((.((...)).))))))..........((----(((((((((((((((((.....)))).))))((.((((((.....))).))))).......----.)))))))))))...... ( -35.10)
>DroYak_CAF1 2130 112 - 1
----UUGGAAUUCCGAAUCGGAAUCGAUGGAUGUUUAUAUGUACAUUGCACCUGAUUAGCGGGUUGUAAGUGCAGUUGUACAAACAUACCUAUCCACA----UAUGUACACUUGUAUGUA
----..(((((((((...))))))..(((..(((.....(((((.(((((((((.....)))).)))))))))).....)))..))).....)))(((----((((......))))))). ( -31.10)
>consensus
CCGAUUGGGAUUCCGAAUCGGAAUCGAUGGAUG____UAUGUGCAUUGCACCUGAUUAGCGGGUUGUAAGUGCAGUUGUACAAACAUGCCUAUCCACA____UAUGUACAUACAAAUGUA
........(((((((...)))))))(.((((((....(((((...(((((((((.....)))).)))))((((....))))..)))))..))))))).........(((((....))))) (-27.33 = -27.70 +   0.37)

alignment

secondary structure

dotplot

Window 0

Location	1,397,303 – 1,397,418
Length	115
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	92.08
Mean single sequence MFE	-33.24
Consensus MFE	-28.72
Energy contribution	-30.09
Covariance contribution	1.37
Combinations/Pair	1.06
Mean z-score	-2.50
Structure conservation index	0.86
SVM decision value	1.71
SVM RNA-class probability	0.973527
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1397303 115 + 27905053
UACAACUGCACUUACAACCCGCUAAUCAGGUGCAAUGCACAUA----CAUUCAUCGAUUCCGACUCGGAAUCCCAAUCGGAAUCCGAAUGGGUGGG-UACUGGCUUUUCUUGUUGCUUCC
..((((........(((((((((......((((...))))...----(((((...((((((((...((....))..)))))))).)))))))))))-)..)).........))))..... ( -33.83)
>DroSec_CAF1 2206 116 + 1
CACAACUGCACUUACAACCCGCUAAUCAGGUGCAAUGCACAUA----CAUCCAUCGAUUCCGAUUCGGAAUCCCAAUCGGAAUCCGAAUGGGUGGGCCACUGGCUUUUCUUGUUGCUUCC
......(((((((..............)))))))..(((((..----((((((((((((((((((.((....))))))))))).)).)))))))((((...)))).....)).))).... ( -37.24)
>DroSim_CAF1 2205 116 + 1
UACAACUGCACUUACAACCCGCUAAUCAGGUGCAAUGCACAUA----CAUCCAUCGAUUCCGAUUCGGAAUCCCAAUCGGAAUCCGAAUGGGUGGGCCACUGGCUUUUCUUGUUGCUUCC
......(((((((..............)))))))..(((((..----((((((((((((((((((.((....))))))))))).)).)))))))((((...)))).....)).))).... ( -37.24)
>DroYak_CAF1 2166 113 + 1
UACAACUGCACUUACAACCCGCUAAUCAGGUGCAAUGUACAUAUAAACAUCCAUCGAUUCCGAUUCGGAAUUCCAA------UACGAAUGGGUGGG-UACUGGCUUUUCUUGUUGCUUCC
..(((((((((((..............)))))))..((((.......(((((((((((((((...)))))).....------..)).))))))).)-)))...........))))..... ( -24.65)
>consensus
UACAACUGCACUUACAACCCGCUAAUCAGGUGCAAUGCACAUA____CAUCCAUCGAUUCCGAUUCGGAAUCCCAAUCGGAAUCCGAAUGGGUGGG_CACUGGCUUUUCUUGUUGCUUCC
..(((((((((((..............)))))))..((.((......((((((((((((((((((.((....))))))))))).)).)))))))......)))).......))))..... (-28.72 = -30.09 +   1.37)

alignment

secondary structure

dotplot

Window 1

Location	1,397,303 – 1,397,418
Length	115
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	92.08
Mean single sequence MFE	-38.90
Consensus MFE	-33.10
Energy contribution	-34.48
Covariance contribution	1.38
Combinations/Pair	1.05
Mean z-score	-2.39
Structure conservation index	0.85
SVM decision value	1.49
SVM RNA-class probability	0.958146
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1397303 115 - 27905053
GGAAGCAACAAGAAAAGCCAGUA-CCCACCCAUUCGGAUUCCGAUUGGGAUUCCGAGUCGGAAUCGAUGAAUG----UAUGUGCAUUGCACCUGAUUAGCGGGUUGUAAGUGCAGUUGUA
....(((((..............-..((..((((((((((((((((.((...)).))))))))))..))))))----..))(((((((((((((.....)))).))).))))))))))). ( -40.80)
>DroSec_CAF1 2206 116 - 1
GGAAGCAACAAGAAAAGCCAGUGGCCCACCCAUUCGGAUUCCGAUUGGGAUUCCGAAUCGGAAUCGAUGGAUG----UAUGUGCAUUGCACCUGAUUAGCGGGUUGUAAGUGCAGUUGUG
....(((((.......(((...))).((.(((((..((((((((((.((...)).))))))))))))))).))----..((..(.(((((((((.....)))).))))))..))))))). ( -42.30)
>DroSim_CAF1 2205 116 - 1
GGAAGCAACAAGAAAAGCCAGUGGCCCACCCAUUCGGAUUCCGAUUGGGAUUCCGAAUCGGAAUCGAUGGAUG----UAUGUGCAUUGCACCUGAUUAGCGGGUUGUAAGUGCAGUUGUA
....(((((.......(((...))).((.(((((..((((((((((.((...)).))))))))))))))).))----..((..(.(((((((((.....)))).))))))..))))))). ( -42.30)
>DroYak_CAF1 2166 113 - 1
GGAAGCAACAAGAAAAGCCAGUA-CCCACCCAUUCGUA------UUGGAAUUCCGAAUCGGAAUCGAUGGAUGUUUAUAUGUACAUUGCACCUGAUUAGCGGGUUGUAAGUGCAGUUGUA
....(((((..((....((((((-(..........)))------))))..(((((...)))))))..............(((((.(((((((((.....)))).))))))))))))))). ( -30.20)
>consensus
GGAAGCAACAAGAAAAGCCAGUA_CCCACCCAUUCGGAUUCCGAUUGGGAUUCCGAAUCGGAAUCGAUGGAUG____UAUGUGCAUUGCACCUGAUUAGCGGGUUGUAAGUGCAGUUGUA
....(((((.................((.((((.((.(((((((((.(.....).))))))))))))))).))......(((((.(((((((((.....)))).))))))))))))))). (-33.10 = -34.48 +   1.38)

alignment

secondary structure

dotplot

Window 2

Location	1,397,343 – 1,397,458
Length	115
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	92.50
Mean single sequence MFE	-30.33
Consensus MFE	-25.81
Energy contribution	-27.38
Covariance contribution	1.56
Combinations/Pair	1.03
Mean z-score	-1.75
Structure conservation index	0.85
SVM decision value	0.56
SVM RNA-class probability	0.781036
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1397343 115 + 27905053
AUA----CAUUCAUCGAUUCCGACUCGGAAUCCCAAUCGGAAUCCGAAUGGGUGGG-UACUGGCUUUUCUUGUUGCUUCCUUUACGGGCCACAGCCUUUUAUCGAUUUAAUAACAAACGA
...----((((((((((((((((...((....))..))))))).)).)))))))((-((..((((...(((((..........)))))....))))...))))................. ( -28.30)
>DroSec_CAF1 2246 116 + 1
AUA----CAUCCAUCGAUUCCGAUUCGGAAUCCCAAUCGGAAUCCGAAUGGGUGGGCCACUGGCUUUUCUUGUUGCUUCCUUUCCGGGCCACAGCCUUUUAUCGAUUUAAUAACAAACGA
...----((((((((((((((((((.((....))))))))))).)).)))))))((((...))))(((.((((((..((......((((....))))......))..)))))).)))... ( -35.30)
>DroSim_CAF1 2245 116 + 1
AUA----CAUCCAUCGAUUCCGAUUCGGAAUCCCAAUCGGAAUCCGAAUGGGUGGGCCACUGGCUUUUCUUGUUGCUUCCUUUCCGGGCCACAGCCUUUUAUCGAUUUAAUAACAAACGA
...----((((((((((((((((((.((....))))))))))).)).)))))))((((...))))(((.((((((..((......((((....))))......))..)))))).)))... ( -35.30)
>DroYak_CAF1 2206 113 + 1
AUAUAAACAUCCAUCGAUUCCGAUUCGGAAUUCCAA------UACGAAUGGGUGGG-UACUGGCUUUUCUUGUUGCUUCCUUUCCGGGCCACAGCCUUUUAUCGAUUUAAUAACAAACGA
.......(((((((((((((((...)))))).....------..)).)))))))((-((..((((......((.((((.......)))).))))))...))))................. ( -22.41)
>consensus
AUA____CAUCCAUCGAUUCCGAUUCGGAAUCCCAAUCGGAAUCCGAAUGGGUGGG_CACUGGCUUUUCUUGUUGCUUCCUUUCCGGGCCACAGCCUUUUAUCGAUUUAAUAACAAACGA
.......((((((((((((((((((.((....))))))))))).)).)))))))...........(((.((((((..((......((((....))))......))..)))))).)))... (-25.81 = -27.38 +   1.56)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:41:23 2006