Locus 5412

Sequence ID	2L_DroMel_CAF1
Location	15,434,815 – 15,434,914
Length	99
Max. P	0.999549

overview

Window 7

Location	15,434,815 – 15,434,914
Length	99
Sequences	5
Columns	99
Reading direction	forward
Mean pairwise identity	97.58
Mean single sequence MFE	-26.63
Consensus MFE	-26.53
Energy contribution	-26.49
Covariance contribution	-0.04
Combinations/Pair	1.04
Mean z-score	-2.19
Structure conservation index	1.00
SVM decision value	3.71
SVM RNA-class probability	0.999549
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15434815 99 + 22407834
ACGGUCUUAGAGCAUGUGCCACAGCCAAAAAGGCGAAGAAAAAGUCUGGCUAAAACCACGGCCAAAAACCUCUAGCCAAGACACUUGGCCACUCGAGAC
...(((((.(((..((.((((..(((.....))).........(((((((((....................))))).))))...)))))))))))))) ( -27.55)
>DroSec_CAF1 180476 99 + 1
ACGGUCUUAGAGCAUGUGCCAUAGCCGAAAAGGCGAAGAAAAAGUCUGGCUAAAACCACGGCCAAAAACCUCUAGCCAAGACACUUGGCCACUCGAGAC
...(((((.(((..((.((((..(((.....))).........(((((((((....................))))).))))...)))))))))))))) ( -28.35)
>DroSim_CAF1 186386 99 + 1
ACGGUCUUAGAGCAUGUGCCAUAGCCAAAAAGGCGAAGAAAAAGUCUGGCUAAAACCACGGCCAAAAACCUCUAGCCAAGACACUUGGCCACUCGAGAC
...(((((.(((..((.((((..(((.....))).........(((((((((....................))))).))))...)))))))))))))) ( -27.65)
>DroEre_CAF1 187382 99 + 1
ACGGUCUUAGAGCAUGUGCCACAGCUAAAAAGGCGAAGAAAAAGUCUGGCUUAAACCACGGCCAAAAACCCCUAGCCAAGACACUUGGCCACUCGAGAC
...(((((.(((..((.((((..(((.....))).........((((((((......................)))).))))...)))))))))))))) ( -24.25)
>DroYak_CAF1 188090 99 + 1
ACGGUCUUAGAGCAUGUGCCACAGCUAAAAAGGCGAAGAAAAAGUCUGGCUAAAACCACGGCCAAAAACCUCUAGCCAAGACACUUGGCCACUCGAGAC
...(((((.(((..((.((((..(((.....))).........(((((((((....................))))).))))...)))))))))))))) ( -25.35)
>consensus
ACGGUCUUAGAGCAUGUGCCACAGCCAAAAAGGCGAAGAAAAAGUCUGGCUAAAACCACGGCCAAAAACCUCUAGCCAAGACACUUGGCCACUCGAGAC
...(((((.(((..((.((((..(((.....))).........(((((((((....................))))).))))...)))))))))))))) (-26.53 = -26.49 +  -0.04)

alignment

secondary structure

dotplot

Window 8

Location	15,434,815 – 15,434,914
Length	99
Sequences	5
Columns	99
Reading direction	reverse
Mean pairwise identity	97.58
Mean single sequence MFE	-31.78
Consensus MFE	-29.74
Energy contribution	-30.22
Covariance contribution	0.48
Combinations/Pair	1.06
Mean z-score	-1.63
Structure conservation index	0.94
SVM decision value	1.59
SVM RNA-class probability	0.965878
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15434815 99 - 22407834
GUCUCGAGUGGCCAAGUGUCUUGGCUAGAGGUUUUUGGCCGUGGUUUUAGCCAGACUUUUUCUUCGCCUUUUUGGCUGUGGCACAUGCUCUAAGACCGU
((((.(((((((((((..((((.....))))..)))))))(((((..((((((((...............))))))))..)).)))))))..))))... ( -33.66)
>DroSec_CAF1 180476 99 - 1
GUCUCGAGUGGCCAAGUGUCUUGGCUAGAGGUUUUUGGCCGUGGUUUUAGCCAGACUUUUUCUUCGCCUUUUCGGCUAUGGCACAUGCUCUAAGACCGU
((((.((((.((((...((((.((((((((((.....))).....))))))))))).........(((.....)))..))))....))))..))))... ( -31.60)
>DroSim_CAF1 186386 99 - 1
GUCUCGAGUGGCCAAGUGUCUUGGCUAGAGGUUUUUGGCCGUGGUUUUAGCCAGACUUUUUCUUCGCCUUUUUGGCUAUGGCACAUGCUCUAAGACCGU
((((.(((((((((((..((((.....))))..)))))))(((((..((((((((...............))))))))..)).)))))))..))))... ( -33.96)
>DroEre_CAF1 187382 99 - 1
GUCUCGAGUGGCCAAGUGUCUUGGCUAGGGGUUUUUGGCCGUGGUUUAAGCCAGACUUUUUCUUCGCCUUUUUAGCUGUGGCACAUGCUCUAAGACCGU
((((....((((((((...))))))))(((((...((((((..(((.((((.(((.....)))..).)))...)))..)))).)).))))).))))... ( -30.70)
>DroYak_CAF1 188090 99 - 1
GUCUCGAGUGGCCAAGUGUCUUGGCUAGAGGUUUUUGGCCGUGGUUUUAGCCAGACUUUUUCUUCGCCUUUUUAGCUGUGGCACAUGCUCUAAGACCGU
((((.(((((((.(((.((((.((((((((((.....))).....))))))))))).....))).)))......((....))....))))..))))... ( -29.00)
>consensus
GUCUCGAGUGGCCAAGUGUCUUGGCUAGAGGUUUUUGGCCGUGGUUUUAGCCAGACUUUUUCUUCGCCUUUUUGGCUGUGGCACAUGCUCUAAGACCGU
((((.(((((((((((..((((.....))))..)))))))((((((.((((((((...............)))))))).))).)))))))..))))... (-29.74 = -30.22 +   0.48)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:43:28 2006