Locus 1072

Sequence ID	3R_DroMel_CAF1
Location	3,294,120 – 3,294,216
Length	96
Max. P	0.993617

overview

Window 2

Location	3,294,120 – 3,294,216
Length	96
Sequences	5
Columns	102
Reading direction	forward
Mean pairwise identity	93.29
Mean single sequence MFE	-19.73
Consensus MFE	-16.08
Energy contribution	-16.32
Covariance contribution	0.24
Combinations/Pair	1.05
Mean z-score	-1.41
Structure conservation index	0.82
SVM decision value	0.13
SVM RNA-class probability	0.599852
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3294120 96 + 27905053
GUUGCUCAUACGCCAGGUAAUCCCACAUCUUUUUUGUA------GCCCGCUUAUGCCGGCUGCUCUAAUCCAAAGCAAACACCUGCGUCAUAAACUUUAAGC
(((......((((.((((............((...(((------(((.((....)).))))))...))............))))))))....)))....... ( -21.55)
>DroSec_CAF1 46949 96 + 1
GUUGCUCAUACGCCAGGUAAUCCCACAUCUUUUUUGUA------GCCCGCUUUUGCCGGCUGCUCUAAUCCAAAGCAAACACCUGCGUCAUAAACUUUAAGC
(((......((((.((((............((...(((------(((.((....)).))))))...))............))))))))....)))....... ( -21.55)
>DroSim_CAF1 48125 96 + 1
GUUGCUCAUACGCCAGGUAAUCCCACAUCUUUUUUGUA------GCCCGCUUUUGCCGGCUGCUCUAAUCCAAAGCAAACACCUGCGUCAUAAACUUUAAGC
(((......((((.((((............((...(((------(((.((....)).))))))...))............))))))))....)))....... ( -21.55)
>DroEre_CAF1 48843 94 + 1
GUUGCUCAUACGCCAGGUAAUCCCAUAUCUUUUUUA--------CCCCGCUUUUGCCGGCUGCUCUAAUCCAAAGCAAACACCUGCGUCAUAAACUUUAAGC
(((......((((.((((..................--------.((.((....)).)).((((.........))))...))))))))....)))....... ( -15.50)
>DroYak_CAF1 66424 101 + 1
GUUGCUCAUAGGCCAGGUAAUC-CAUAUCUUUUUUGUACCUUUUGCCCGCUUUUGCCGGCAGUUCUAAUCCAAAGCAAACACCUGCGUCAUAAACUUUAAGC
..........((((((((....-....................((((.((....)).))))(((.........)))....))))).)))............. ( -18.50)
>consensus
GUUGCUCAUACGCCAGGUAAUCCCACAUCUUUUUUGUA______GCCCGCUUUUGCCGGCUGCUCUAAUCCAAAGCAAACACCUGCGUCAUAAACUUUAAGC
(((......((((.((((..........................(((.((....)).))).(((.........)))....))))))))....)))....... (-16.08 = -16.32 +   0.24)

alignment

secondary structure

dotplot

Window 3

Location	3,294,120 – 3,294,216
Length	96
Sequences	5
Columns	102
Reading direction	reverse
Mean pairwise identity	93.29
Mean single sequence MFE	-28.60
Consensus MFE	-24.94
Energy contribution	-25.74
Covariance contribution	0.80
Combinations/Pair	1.00
Mean z-score	-2.03
Structure conservation index	0.87
SVM decision value	2.41
SVM RNA-class probability	0.993617
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3294120 96 - 27905053
GCUUAAAGUUUAUGACGCAGGUGUUUGCUUUGGAUUAGAGCAGCCGGCAUAAGCGGGC------UACAAAAAAGAUGUGGGAUUACCUGGCGUAUGAGCAAC
.......(((((((.((((((((...((((((...))))))((((.((....)).)))------)..................))))).))))))))))... ( -30.40)
>DroSec_CAF1 46949 96 - 1
GCUUAAAGUUUAUGACGCAGGUGUUUGCUUUGGAUUAGAGCAGCCGGCAAAAGCGGGC------UACAAAAAAGAUGUGGGAUUACCUGGCGUAUGAGCAAC
.......(((((((.((((((((...((((((...))))))((((.((....)).)))------)..................))))).))))))))))... ( -30.40)
>DroSim_CAF1 48125 96 - 1
GCUUAAAGUUUAUGACGCAGGUGUUUGCUUUGGAUUAGAGCAGCCGGCAAAAGCGGGC------UACAAAAAAGAUGUGGGAUUACCUGGCGUAUGAGCAAC
.......(((((((.((((((((...((((((...))))))((((.((....)).)))------)..................))))).))))))))))... ( -30.40)
>DroEre_CAF1 48843 94 - 1
GCUUAAAGUUUAUGACGCAGGUGUUUGCUUUGGAUUAGAGCAGCCGGCAAAAGCGGGG--------UAAAAAAGAUAUGGGAUUACCUGGCGUAUGAGCAAC
.......(((((((.((((((((.((((((((...))))))))((.((....)).)).--------.................))))).))))))))))... ( -27.10)
>DroYak_CAF1 66424 101 - 1
GCUUAAAGUUUAUGACGCAGGUGUUUGCUUUGGAUUAGAACUGCCGGCAAAAGCGGGCAAAAGGUACAAAAAAGAUAUG-GAUUACCUGGCCUAUGAGCAAC
(((((..((((.((..((((...((((........)))).))))...)).))))((((...(((((.............-...))))).)))).)))))... ( -24.69)
>consensus
GCUUAAAGUUUAUGACGCAGGUGUUUGCUUUGGAUUAGAGCAGCCGGCAAAAGCGGGC______UACAAAAAAGAUGUGGGAUUACCUGGCGUAUGAGCAAC
.......((((((.(((((((((..(((((((...)))))))(((.((....)).))).........................))))).))))))))))... (-24.94 = -25.74 +   0.80)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:59:49 2006