Locus 7381

Sequence ID	3L_DroMel_CAF1
Location	19,816,292 – 19,816,445
Length	153
Max. P	0.744685

overview

Window 6

Location	19,816,292 – 19,816,407
Length	115
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	81.41
Mean single sequence MFE	-49.57
Consensus MFE	-29.70
Energy contribution	-30.57
Covariance contribution	0.86
Combinations/Pair	1.20
Mean z-score	-1.99
Structure conservation index	0.60
SVM decision value	0.22
SVM RNA-class probability	0.640748
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19816292 115 - 23771897
GGCUGGAUUCCAGGGCACAACAUUGCCAGCAUUCACGAGCGGACCGGCUGGCAACUUUGCCAACUUUCGGCCACAGUUCUCGGUGCCCGGCCAGCUAUCGAAUAAUUCCGGCG---UC--
((((((...((.((((((....((((((((.(((......)))...))))))))....(((.......)))...........)))))))))))))).(((........)))..---..-- ( -40.70)
>DroVir_CAF1 175 117 - 1
GGCCGGCUUUCAGGGCACCACCCUGCCGGCCUUCACGGGCGGACCCGCUGGCAACUUUGCCAACUUUCGGCCACAGUUCUCGGUGCCCGGGCAGCUGCCCAACAAUGCCG---GCACCUG
.((((((.....(((((((...(((..((((....((((....)))).(((((....)))))......)))).))).....)))))))((((....))))......))))---))..... ( -59.30)
>DroGri_CAF1 2 120 - 1
GGCCGGGUUUCAAGGCACCUCAUUGCCGGCAUUCACUGGCGGACCCGCCGGCAACUUUGCCAACUUUCGGCCACAGUUCUCGGUGCCCGGGCAGCUGGCCAACAACACCGGCGGCUCCUG
.(((((.......((((......))))........)))))(((.(((((((((....)))).......(((((..((((((((...))))).)))))))).........))))).))).. ( -51.76)
>DroWil_CAF1 6615 117 - 1
GGCUGGAUUCCAGGGCACAACUUUGCCGGCCUUUACCGGCGGACCGGCUGGCAAUUUUGCAAAUUUCCGACCACAGUUCUCUGUGCCCGGCCAGCUAUCGAAUAACUCGGGCA---AUUA
((((((...((.(((((((.....(((((......)))))((((.((.(((.((((.....)))).))).))...))))..))))))))))))))).((((.....))))...---.... ( -42.90)
>DroMoj_CAF1 2 120 - 1
GGCCGGCUUUCAGGGCACCACCUUGCCGGCAUUCACGGGGGGACCAGCUGGGAACUUUGCCAAUUUUCGACCACAGUUCUCAGUGCCCGGGCAGCUGUCCAACAACGCCGGCGGCACCUG
.((((((.....((((....((((.(((.......)))))))....((((((((((.((............)).))))))))))))))((((....))))......))))))........ ( -49.10)
>DroAna_CAF1 2 117 - 1
GGCUGGAUUCCAGGGCACGACACUGCCCGCAUUCACCGGCGGACCGGCUGGCAACUUCGCCAGCUUCCGGCCACAGUUCUCGGUGCCCGGCCAGCUAUCGAAUAACGCCGGCG---CCUA
(((((((.(((.(((((......)))))((........)))))..(((((((......)))))))))))))).........((((((.(((...............)))))))---)).. ( -53.66)
>consensus
GGCCGGAUUCCAGGGCACCACAUUGCCGGCAUUCACGGGCGGACCGGCUGGCAACUUUGCCAACUUUCGGCCACAGUUCUCGGUGCCCGGCCAGCUAUCCAACAACGCCGGCG___CCUG
.((((((.....((((((......((((((.(((......)))...))))))((((..(((.......)))...))))....))))))((....))..........))))))........ (-29.70 = -30.57 +   0.86)

alignment

secondary structure

dotplot

Window 7

Location	19,816,327 – 19,816,445
Length	118
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	81.63
Mean single sequence MFE	-43.05
Consensus MFE	-24.25
Energy contribution	-24.28
Covariance contribution	0.03
Combinations/Pair	1.19
Mean z-score	-2.11
Structure conservation index	0.56
SVM decision value	0.07
SVM RNA-class probability	0.568867
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19816327 118 + 23771897
AGAACUGUGGCCGAAAGUUGGCAAAGUUGCCAGCCGGUCCGCUCGUGAAUGCUGGCAAUGUUGUGCCCUGGAAUCCAGCCGGGAAUUGUGCCAUCAAUUGAGCUG--CAACAGAAAUAAA
....(((((((((...(((((((....)))))))))))).(((((....((.(((((.....((..(((((.......))))).))..))))).))..)))))..--..))))....... ( -41.10)
>DroVir_CAF1 212 114 + 1
AGAACUGUGGCCGAAAGUUGGCAAAGUUGCCAGCGGGUCCGCCCGUGAAGGCCGGCAGGGUGGUGCCCUGAAAGCCGGCCGGAAACUGUGCCAUCAAUUGAGCUG--CAAAA----CCAA
.....((..(((((..(.(((((.((((.((.(((((....)))))...(((((((((((.....))))....))))))))).)))).))))).)..))).))..--))...----.... ( -54.30)
>DroGri_CAF1 42 118 + 1
AGAACUGUGGCCGAAAGUUGGCAAAGUUGCCGGCGGGUCCGCCAGUGAAUGCCGGCAAUGAGGUGCCUUGAAACCCGGCCGGGAAUUGAGGCAUCAAUUGAGCUG--CAAUCAAACCAAA
.((..((..(((((..(((((((...(..(.((((....)))).)..).))))))).....(((((((..(..(((....)))..)..)))))))..))).))..--)).))........ ( -50.20)
>DroWil_CAF1 6652 120 + 1
AGAACUGUGGUCGGAAAUUUGCAAAAUUGCCAGCCGGUCCGCCGGUAAAGGCCGGCAAAGUUGUGCCCUGGAAUCCAGCCGGGAAUUGAGCCAUCAGUUGUGCUAAUGAACAGAACAAGA
....((((((((((......(((....)))...)))).))((((((....))))))......(..((((((.......)))))((((((....)))))))..)......))))....... ( -36.40)
>DroMoj_CAF1 42 118 + 1
AGAACUGUGGUCGAAAAUUGGCAAAGUUCCCAGCUGGUCCCCCCGUGAAUGCCGGCAAGGUGGUGCCCUGAAAGCCGGCCGGAAAUUGUGCCAUCAAUUGAGCUG--CAAAAUUGACAAA
.....((..(((((....(((((...((((..((.((....)).))....((((((.(((......)))....)))))).))))....)))))....)))).)..--))........... ( -35.50)
>DroAna_CAF1 39 118 + 1
AGAACUGUGGCCGGAAGCUGGCGAAGUUGCCAGCCGGUCCGCCGGUGAAUGCGGGCAGUGUCGUGCCCUGGAAUCCAGCCGGAAAUUGUGCCAUUAAUUGAGCUG--CAAAAUAAAAAUU
.....((..((((((.(((((((....)))))))...))))(((((......(((((......)))))(((...))))))))...................))..--))........... ( -40.80)
>consensus
AGAACUGUGGCCGAAAGUUGGCAAAGUUGCCAGCCGGUCCGCCCGUGAAUGCCGGCAAUGUGGUGCCCUGAAAUCCAGCCGGAAAUUGUGCCAUCAAUUGAGCUG__CAAAAGAAACAAA
........((((((....(((((.((((.((.((.((...((........)).((((......)))).......)).)).)).)))).)))))....))).)))................ (-24.25 = -24.28 +   0.03)

alignment

secondary structure

dotplot

Window 8

Location	19,816,327 – 19,816,445
Length	118
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	81.63
Mean single sequence MFE	-40.23
Consensus MFE	-25.44
Energy contribution	-26.38
Covariance contribution	0.95
Combinations/Pair	1.24
Mean z-score	-2.13
Structure conservation index	0.63
SVM decision value	0.46
SVM RNA-class probability	0.744685
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19816327 118 - 23771897
UUUAUUUCUGUUG--CAGCUCAAUUGAUGGCACAAUUCCCGGCUGGAUUCCAGGGCACAACAUUGCCAGCAUUCACGAGCGGACCGGCUGGCAACUUUGCCAACUUUCGGCCACAGUUCU
.......((((.(--(...((....))(((((......((((((((..(((..((((......)))).((........)))))))))))))......))))).......)).)))).... ( -36.70)
>DroVir_CAF1 212 114 - 1
UUGG----UUUUG--CAGCUCAAUUGAUGGCACAGUUUCCGGCCGGCUUUCAGGGCACCACCCUGCCGGCCUUCACGGGCGGACCCGCUGGCAACUUUGCCAACUUUCGGCCACAGUUCU
..((----..(((--..(((.((..(.(((((.((((.(((((((((....((((.....)))))))))))......((((....)))))).)))).))))).).)).)))..)))..)) ( -45.30)
>DroGri_CAF1 42 118 - 1
UUUGGUUUGAUUG--CAGCUCAAUUGAUGCCUCAAUUCCCGGCCGGGUUUCAAGGCACCUCAUUGCCGGCAUUCACUGGCGGACCCGCCGGCAACUUUGCCAACUUUCGGCCACAGUUCU
...((...(((((--..((((....)).))..))))).))(((((((......((((......))))((((....((((((....))))))......))))....)))))))........ ( -41.00)
>DroWil_CAF1 6652 120 - 1
UCUUGUUCUGUUCAUUAGCACAACUGAUGGCUCAAUUCCCGGCUGGAUUCCAGGGCACAACUUUGCCGGCCUUUACCGGCGGACCGGCUGGCAAUUUUGCAAAUUUCCGACCACAGUUCU
....(..((((.((((((.....))))))((..((((.((((((((..(((..((((......)))).(((......)))))))))))))).))))..))............))))..). ( -40.10)
>DroMoj_CAF1 42 118 - 1
UUUGUCAAUUUUG--CAGCUCAAUUGAUGGCACAAUUUCCGGCCGGCUUUCAGGGCACCACCUUGCCGGCAUUCACGGGGGGACCAGCUGGGAACUUUGCCAAUUUUCGACCACAGUUCU
...(((((((...--......)))))))((((.(.((((((((((((....(((......))).)))))).......((....))...)))))).).))))................... ( -35.60)
>DroAna_CAF1 39 118 - 1
AAUUUUUAUUUUG--CAGCUCAAUUAAUGGCACAAUUUCCGGCUGGAUUCCAGGGCACGACACUGCCCGCAUUCACCGGCGGACCGGCUGGCAACUUCGCCAGCUUCCGGCCACAGUUCU
.............--............((((.......((((.(((((....(((((......)))))..)))))))))((((..(((((((......)))))))))))))))....... ( -42.70)
>consensus
UUUGUUUAUUUUG__CAGCUCAAUUGAUGGCACAAUUCCCGGCCGGAUUCCAGGGCACCACAUUGCCGGCAUUCACGGGCGGACCGGCUGGCAACUUUGCCAACUUUCGGCCACAGUUCU
.....................(((((..((........))(((((((......((((.....((((((((.(((......)))...))))))))...))))....))))))).))))).. (-25.44 = -26.38 +   0.95)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:45:31 2006