Locus 4502

Sequence ID	2R_DroMel_CAF1
Location	14,792,718 – 14,792,855
Length	137
Max. P	0.540793

overview

Window 7

Location	14,792,718 – 14,792,821
Length	103
Sequences	6
Columns	107
Reading direction	reverse
Mean pairwise identity	82.25
Mean single sequence MFE	-40.30
Consensus MFE	-28.43
Energy contribution	-29.93
Covariance contribution	1.50
Combinations/Pair	1.16
Mean z-score	-1.42
Structure conservation index	0.71
SVM decision value	0.01
SVM RNA-class probability	0.540118
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14792718 103 - 20766785
GACUGGUGAAGGCGGCGCUCAGCAGCGUCGGCGAGUAGAAGGAUAGAUGCUUCCUGACCUUGAGCGCCAGUUUAAGGCCUACGGAUCACCUGGUUGCCUGGUU----
(((((((((.(.(((((((....))))))).)..((((.((((........))))..((((((((....)))))))).))))...))))).))))........---- ( -39.50)
>DroVir_CAF1 26235 106 - 1
GGCUGGUGAACGCGGCGCUCAGCAGUGUGGGCGAGUAUGAGGCGAGGUGCUUUCUGACCUUGAGCGCCAGCUUAAGGCUUACGGUUCACCAG-UUGCCUGUUGUUGU
(((((((((((..((((((((..((.((.((.((((((........)))))).)).))))))))))))(((.....)))....)))))))))-))............ ( -44.70)
>DroGri_CAF1 28642 98 - 1
GUGAGGUGAACGCGGCGCUCAGCAGCGUCGGCGAAUAUGAGGCGAGAUGCUUCCUGACCUUGAGCGCCAGCUUAAGGCUUACACUUCACCAC-UUGGCC--------
((((((((..(((((((((....)))))).))).....(((((.....)))))....((((((((....))))))))....))))))))...-......-------- ( -39.90)
>DroEre_CAF1 26811 103 - 1
GACUGGUGAAGGCGGCGCUCAGCAGCGUCGGCGAGUAGAAGGAUAGAUGCUUCCUGACCUUGAGCGCCAGUUUAAGGCCUACGGAUCACCUGGUUGCCUGGCC----
....(((..((((((((((((..((.(((((.(((((..........))))).))))))))))))))).......((((...((....)).)))))))).)))---- ( -40.40)
>DroWil_CAF1 36957 98 - 1
AACUUGUGAACGCGGCACUCAGCAGCGUUGGCGAGUAGGAGGAUAGAUGUUUCCUGACCUUGAGCGCCAGUUUAAGGCUUACACUUCAACGGGUUUC-----G----
...((((.(((((.((.....)).))))).))))(((((((((........))))..((((((((....)))))))))))))...............-----.---- ( -31.70)
>DroAna_CAF1 22520 103 - 1
GGCUGGUGAACGCGGCGCUGAGCAGCGUCGGCGAGUAGGAGGAGAGGUGCUUCCUGACCUUGAGCGCCAGUUUAAGGCCUACGGAUCACCUGGUUGCCUGUUG----
(((.(((((.(((((((((....)))))).))).((((((((((......)))))..((((((((....)))))))))))))...))))).....))).....---- ( -45.60)
>consensus
GACUGGUGAACGCGGCGCUCAGCAGCGUCGGCGAGUAGGAGGAGAGAUGCUUCCUGACCUUGAGCGCCAGUUUAAGGCCUACGGAUCACCUGGUUGCCUG_UG____
....(((((.(((((((((....)))))).))).(((((((((........))))..((((((((....)))))))))))))...)))))................. (-28.43 = -29.93 +   1.50)

alignment

secondary structure

dotplot

Window 8

Location	14,792,741 – 14,792,855
Length	114
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	81.08
Mean single sequence MFE	-43.77
Consensus MFE	-29.51
Energy contribution	-29.35
Covariance contribution	-0.16
Combinations/Pair	1.21
Mean z-score	-1.35
Structure conservation index	0.67
SVM decision value	0.01
SVM RNA-class probability	0.540793
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14792741 114 - 20766785
CUGCUAUUGCUGCUGUUGUUG------UACACACCGUUCAGACUGGUGAAGGCGGCGCUCAGCAGCGUCGGCGAGUAGAAGGAUAGAUGCUUCCUGACCUUGAGCGCCAGUUUAAGGCCU
.((((..((((((((.(((((------(...(((((.......)))))...))))))..))))))))..))))......((((........))))..((((((((....))))))))... ( -43.20)
>DroVir_CAF1 26261 105 - 1
CUGC---------UGCUGUGA------UAGGCGCUGUUCAGGCUGGUGAACGCGGCGCUCAGCAGUGUGGGCGAGUAUGAGGCGAGGUGCUUUCUGACCUUGAGCGCCAGCUUAAGGCUU
..((---------(((((.(.------..(.(((.(((((......)))))))).).).)))))))......((((...((((..(((((((.........))))))).))))...)))) ( -41.40)
>DroGri_CAF1 28660 105 - 1
CUGC---------UGCUGUGG------UAGGCGCUGUUCAGUGAGGUGAACGCGGCGCUCAGCAGCGUCGGCGAAUAUGAGGCGAGAUGCUUCCUGACCUUGAGCGCCAGCUUAAGGCUU
..((---------(((((.((------(.(.(((.(((((......)))))))).)))))))))))(((((.......(((((.....))))))))))(((((((....))))))).... ( -43.31)
>DroWil_CAF1 36975 105 - 1
CUGC---------UGCUGUGA------UAGACGCUAUUCAAACUUGUGAACGCGGCACUCAGCAGCGUUGGCGAGUAGGAGGAUAGAUGUUUCCUGACCUUGAGCGCCAGUUUAAGGCUU
....---------........------.(((((((((((..((((((.(((((.((.....)).))))).))))))....)))))).))))).....((((((((....))))))))... ( -34.50)
>DroAna_CAF1 22543 120 - 1
CUGCUGCUGUUGCUGUUGCUGUGGCGGUAGGCACCGUUCAGGCUGGUGAACGCGGCGCUGAGCAGCGUCGGCGAGUAGGAGGAGAGGUGCUUCCUGACCUUGAGCGCCAGUUUAAGGCCU
(((((((..(.((....)).)..))))))).........(((((..(((((..((((((....))))))((((..(((((((((......)))))...))))..)))).))))).))))) ( -51.70)
>DroMoj_CAF1 30415 105 - 1
CUGC---------UGCUGUGG------UAGGCGCUGUUCAGGCUGGUGAACGCGGCGCUCAGCAGUGUGGGGGAGUACGAGGCAAGAUGCUUCCUCACCUUGAGCGCCAGCUUAAGGCUU
....---------.(((....------(((((((.(((((......)))))))((((((((..((.((((((((((((.......).))))))))))))))))))))).))))).))).. ( -48.50)
>consensus
CUGC_________UGCUGUGG______UAGGCGCUGUUCAGGCUGGUGAACGCGGCGCUCAGCAGCGUCGGCGAGUAGGAGGAGAGAUGCUUCCUGACCUUGAGCGCCAGCUUAAGGCUU
..............(((..........(((((..((((((......)))))).((((((((..((.(((((.(((((..........))))).))))))))))))))).))))).))).. (-29.51 = -29.35 +  -0.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:21:27 2006