Locus 5695

Sequence ID	X_DroMel_CAF1
Location	14,730,055 – 14,730,161
Length	106
Max. P	0.864210

overview

Window 6

Location	14,730,055 – 14,730,161
Length	106
Sequences	6
Columns	118
Reading direction	forward
Mean pairwise identity	78.22
Mean single sequence MFE	-46.02
Consensus MFE	-31.18
Energy contribution	-32.35
Covariance contribution	1.17
Combinations/Pair	1.17
Mean z-score	-1.65
Structure conservation index	0.68
SVM decision value	0.84
SVM RNA-class probability	0.864210
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14730055 106 + 22224390
UACGCCCGCUGCCGCCGCCGCCUUAGAUGCGGCACUCGCCUUGAAGAGCAGACCGCCCACGGAAACGGCGGCGGCGCCUAGAGCUGGAACUACAACCAUGAU-----UUUA-------
....((.((((.((((((((((......(((((.(((........)))..).))))....(....))))))))))).)...))).))...............-----....------- ( -40.10)
>DroVir_CAF1 49237 118 + 1
CACGCCCGCUGCGGCAGCCGCCUUCGAGGCGGCGCUUGCCUUGAAGAGCAGCCCGCCCACCGAAACGGCGGCGGCGCCCAGGGCAGGCACAACAACCAUAUUGACAGCUAAAAAUAUC
.......(((((((..((((((.....))))))((((((((((..(.((.(((.(((..(((...))).)))))))))))))))))))............))).)))).......... ( -50.30)
>DroWil_CAF1 19395 113 + 1
CACUCCGGCUGUGGCGGCUGCCUUGGAGGCGGCACUUGCCUUGAAGAGUAGACCGCCCACAGAGACAGCAGCAGCGCCCAGAGCGGGAACCACAACCAUAAUGAUAGAUCGAA-----
(.(((.((((((((((((((((((.((((((.....)))))).))).)))).))).)))))).....((....))..)).))).)((........))................----- ( -39.30)
>DroYak_CAF1 22772 113 + 1
CACGCCCGCUGCUGCCGCCGCCUUGGAGGCGGCACUCGCCUUGAAGAGCAGACCGCCCACGGAAACGGCGGCGGCGCCCAGAGCGGGAACUACAACCAUGUUGUUAUUUUUAU-----
....((((((((.(((((((((..(..((((((.(((........)))..).)))))..)(....))))))))))))....))))))(((.(((....))).)))........----- ( -52.30)
>DroMoj_CAF1 45460 112 + 1
CACGCCCGCUGUGGCAGCCGCCUUCGAGGCGGUGCUCGCCUUAAAGAGCAGCCCGCCCACCGAGACAGCGGCAGCGCCUAGAGCAGGCACAACAACCAUAUUGAAGGGUU-----CU-
...(((.(((.((((.(((((.((((.((((((((((........)))))..)))))...))))...)))))...))).).))).))).....((((.........))))-----..- ( -45.30)
>DroAna_CAF1 21094 106 + 1
CACUCCGGCGGUGGCGGCCGCCUUGGAGGCGGCACUGGCCUUGAAGAGGAGCCCGCCCACCGAAACGGCGGCGGCGCCCAGAGCCGGAACCACAACCAUGAU-----CCUU-------
...(((((((((((((((((((.....))))))...((((((....))).))))).))))).....((((....))))....))))))..............-----....------- ( -48.80)
>consensus
CACGCCCGCUGCGGCAGCCGCCUUGGAGGCGGCACUCGCCUUGAAGAGCAGACCGCCCACCGAAACGGCGGCGGCGCCCAGAGCAGGAACAACAACCAUAAUGA_AGCUUA_______
...(((.(((..(((.((((((((.((((((.....)))))).))).)).(.(((((.........))))))))))))...))).))).............................. (-31.18 = -32.35 +   1.17)

alignment

secondary structure

dotplot

Window 7

Location	14,730,055 – 14,730,161
Length	106
Sequences	6
Columns	118
Reading direction	reverse
Mean pairwise identity	78.22
Mean single sequence MFE	-50.98
Consensus MFE	-35.99
Energy contribution	-36.10
Covariance contribution	0.11
Combinations/Pair	1.31
Mean z-score	-1.46
Structure conservation index	0.71
SVM decision value	0.70
SVM RNA-class probability	0.827868
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14730055 106 - 22224390
-------UAAA-----AUCAUGGUUGUAGUUCCAGCUCUAGGCGCCGCCGCCGUUUCCGUGGGCGGUCUGCUCUUCAAGGCGAGUGCCGCAUCUAAGGCGGCGGCGGCAGCGGGCGUA
-------....-----....(((........)))((((...(((((((((((((((..(((((((.((.(((......))))).)))).)))...))))))))))))).))))))... ( -49.60)
>DroVir_CAF1 49237 118 - 1
GAUAUUUUUAGCUGUCAAUAUGGUUGUUGUGCCUGCCCUGGGCGCCGCCGCCGUUUCGGUGGGCGGGCUGCUCUUCAAGGCAAGCGCCGCCUCGAAGGCGGCUGCCGCAGCGGGCGUG
........(((((((....)))))))....((((((..(((((((((((((((...))))((((((((((((......))).))).))))))....)))))).))).))))))))... ( -54.90)
>DroWil_CAF1 19395 113 - 1
-----UUCGAUCUAUCAUUAUGGUUGUGGUUCCCGCUCUGGGCGCUGCUGCUGUCUCUGUGGGCGGUCUACUCUUCAAGGCAAGUGCCGCCUCCAAGGCAGCCGCCACAGCCGGAGUG
-----..........((((.((((((((((.(((.....))).)).((.(((((((.((..((((((..(((..(....)..)))))))))..))))))))).)))))))))).)))) ( -46.20)
>DroYak_CAF1 22772 113 - 1
-----AUAAAAAUAACAACAUGGUUGUAGUUCCCGCUCUGGGCGCCGCCGCCGUUUCCGUGGGCGGUCUGCUCUUCAAGGCGAGUGCCGCCUCCAAGGCGGCGGCAGCAGCGGGCGUG
-----.........(((((...)))))....((((((....(((((((((((......(..((((((..((((........))))))))))..)..))))))))).)))))))).... ( -52.30)
>DroMoj_CAF1 45460 112 - 1
-AG-----AACCCUUCAAUAUGGUUGUUGUGCCUGCUCUAGGCGCUGCCGCUGUCUCGGUGGGCGGGCUGCUCUUUAAGGCGAGCACCGCCUCGAAGGCGGCUGCCACAGCGGGCGUG
-..-----.......(((((....))))).(((((((...((((..((((((...(((..((((((((((((......))).))).))))))))).))))))))))..)))))))... ( -52.00)
>DroAna_CAF1 21094 106 - 1
-------AAGG-----AUCAUGGUUGUGGUUCCGGCUCUGGGCGCCGCCGCCGUUUCGGUGGGCGGGCUCCUCUUCAAGGCCAGUGCCGCCUCCAAGGCGGCCGCCACCGCCGGAGUG
-------..((-----(((((....)))))))((((.((((((.(((((((((...)))).))))))).(((.....))))))).)))).((((..(((((......))))))))).. ( -50.90)
>consensus
_______AAAACU_UCAACAUGGUUGUAGUUCCCGCUCUGGGCGCCGCCGCCGUUUCGGUGGGCGGGCUGCUCUUCAAGGCGAGUGCCGCCUCCAAGGCGGCCGCCACAGCGGGCGUG
.............................((((((((...(((((((((.(((((......)))))...........((((.......))))....)))))).)))..)))))))).. (-35.99 = -36.10 +   0.11)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:54:14 2006