Locus 92

Sequence ID	3R_DroMel_CAF1
Location	578,502 – 578,615
Length	113
Max. P	0.877793

overview

Window 3

Location	578,502 – 578,615
Length	113
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	77.16
Mean single sequence MFE	-30.97
Consensus MFE	-17.42
Energy contribution	-17.42
Covariance contribution	0.00
Combinations/Pair	1.20
Mean z-score	-1.65
Structure conservation index	0.56
SVM decision value	0.21
SVM RNA-class probability	0.633749
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 578502 113 + 27905053
------G-UUUUUGAUUACUCACUGCCACAGAUAGAUUAGUAUCACAGUUGGCCACGAGAUGGCCAUGUAGAGGUGGGACCAGCUGGACCAGAAGCUGGCAACUCCGGGCAACAUCAUUA
------.-....((((..((((((.(.(((((((......)))).....((((((.....))))))))).).)))))).((((((........))))))........(....)))))... ( -31.70)
>DroVir_CAF1 1233 118 + 1
CAAUAAGACU--UUGAUACUUACUGCCACAGGUAGAUGAGUAUGACUGUGGGCCAGGAGAUGGCCAUAUAGAGGUGAGACCAGCUGGACCAAAAACUGGCAACGCCUGGCAACAUCAUAA
..........--...((((((((((((...))))).)))))))..((((((((((.....))))).))))).((((...((((.((..(((.....)))...)).))))...)))).... ( -36.00)
>DroGri_CAF1 1126 113 + 1
CAGAAAG-------GUUACUUACUGCCACAAAUAGAUGAGUAUCACUGUGGGCCAGGAGAUGGCCAUAUAGAGGUGCGACCAACUGGACCAGAAACUAGCCACACCCGGCAACAUCAUAA
(((.(((-------....))).))).........(((((((.((.((((((((((.....))))).))))).(((.((......)).))).)).))).(((......)))..)))).... ( -33.30)
>DroWil_CAF1 434 113 + 1
------G-AUUUUCCAUGCUUACUGCCAUAGAUAGAUAAGUAUUACAGUGGGCCAUGAAAUGGCCAUAUAAAGAUGUGACCAACUGGACCAGAAACUUGCAACGCCCGGCAACAUCAUGA
------.-......((((.....((((...((((......)))).....((((.......(((.(((((....))))).))).(((...)))...........))))))))....)))). ( -22.80)
>DroMoj_CAF1 1195 108 + 1
------------UUAAUACUUACUGCCAAAGGUAAAUGAGUAUUACUGUGGGCCAAGAAAUGGCCAUAUAAAGAUGCGACCAGCUAGACCAAAAGCUGGCCAAUCCUGGUAACAUCAUAA
------------.(((((((((.((((...))))..))))))))).(((((((((.....))))).))))..((((..(((((((((........)))))......))))..)))).... ( -31.30)
>DroAna_CAF1 1042 108 + 1
------A-UU-----CUACUUACUGCCACAGAUAGAUAAGUAUCACAGUUGGCCAGGAGAUGGCCAUGUAGAGGUGGGACCAGCUGGAAAAGAAGCUAGCCAGCCCAGGAAGCAUCAUAA
------.-((-----((((((.((((....((((......)))).....((((((.....)))))).))))))))))))((.(((((............)))))...))........... ( -30.70)
>consensus
______G__U__U_AAUACUUACUGCCACAGAUAGAUGAGUAUCACAGUGGGCCAGGAGAUGGCCAUAUAGAGGUGCGACCAGCUGGACCAGAAACUGGCAACGCCCGGCAACAUCAUAA
................(((((((((.......))).))))))........(((((.....))))).......((((...((.(((((........))))).......))...)))).... (-17.42 = -17.42 +   0.00)

alignment

secondary structure

dotplot

Window 4

Location	578,502 – 578,615
Length	113
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	77.16
Mean single sequence MFE	-32.21
Consensus MFE	-20.57
Energy contribution	-19.93
Covariance contribution	-0.64
Combinations/Pair	1.29
Mean z-score	-1.72
Structure conservation index	0.64
SVM decision value	0.90
SVM RNA-class probability	0.877793
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 578502 113 - 27905053
UAAUGAUGUUGCCCGGAGUUGCCAGCUUCUGGUCCAGCUGGUCCCACCUCUACAUGGCCAUCUCGUGGCCAACUGUGAUACUAAUCUAUCUGUGGCAGUGAGUAAUCAAAAA-C------
........((((((((((..(((((((........)))))))..).....(((((((((((...)))))))..))))...........)))).)))))(((....)))....-.------ ( -35.70)
>DroVir_CAF1 1233 118 - 1
UUAUGAUGUUGCCAGGCGUUGCCAGUUUUUGGUCCAGCUGGUCUCACCUCUAUAUGGCCAUCUCCUGGCCCACAGUCAUACUCAUCUACCUGUGGCAGUAAGUAUCAA--AGUCUUAUUG
..........((((((.(..((((......(((((....))....)))......))))...).))))))((((((..............))))))(((((((......--...))))))) ( -31.84)
>DroGri_CAF1 1126 113 - 1
UUAUGAUGUUGCCGGGUGUGGCUAGUUUCUGGUCCAGUUGGUCGCACCUCUAUAUGGCCAUCUCCUGGCCCACAGUGAUACUCAUCUAUUUGUGGCAGUAAGUAAC-------CUUUCUG
..........((((((.(((((((......(((((....))....)))......)))))))..))))))((((((.(((....)))...))))))(((.(((....-------))).))) ( -33.70)
>DroWil_CAF1 434 113 - 1
UCAUGAUGUUGCCGGGCGUUGCAAGUUUCUGGUCCAGUUGGUCACAUCUUUAUAUGGCCAUUUCAUGGCCCACUGUAAUACUUAUCUAUCUAUGGCAGUAAGCAUGGAAAAU-C------
(((((...((((((((..(((((.((....((.(((..((((((.((....)).)))))).....))))).)))))))..))..........))))))....))))).....-.------ ( -25.60)
>DroMoj_CAF1 1195 108 - 1
UUAUGAUGUUACCAGGAUUGGCCAGCUUUUGGUCUAGCUGGUCGCAUCUUUAUAUGGCCAUUUCUUGGCCCACAGUAAUACUCAUUUACCUUUGGCAGUAAGUAUUAA------------
....((((((((.((((((((((((((........))))))))).))))).....(((((.....)))))....)))))).))((((((........)))))).....------------ ( -32.50)
>DroAna_CAF1 1042 108 - 1
UUAUGAUGCUUCCUGGGCUGGCUAGCUUCUUUUCCAGCUGGUCCCACCUCUACAUGGCCAUCUCCUGGCCAACUGUGAUACUUAUCUAUCUGUGGCAGUAAGUAG-----AA-U------
.............((((...(((((((........)))))))))))..(((((.((((((.....))))))(((((.(((..........))).)))))..))))-----).-.------ ( -33.90)
>consensus
UUAUGAUGUUGCCAGGAGUGGCCAGCUUCUGGUCCAGCUGGUCCCACCUCUAUAUGGCCAUCUCCUGGCCCACAGUGAUACUCAUCUAUCUGUGGCAGUAAGUAUC_A__A__C______
......(((((((.((....(((((((........)))))))....)).......(((((.....))))).......................))))))).................... (-20.57 = -19.93 +  -0.64)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:32:50 2006