Locus 2195

Sequence ID 3R_DroMel_CAF1
Location 6,271,198 – 6,271,294
Length 96
Max. P 0.887022
window3567 window3568

overview

Window 7

Location 6,271,198 – 6,271,294
Length 96
Sequences 4
Columns 101
Reading direction forward
Mean pairwise identity 83.25
Mean single sequence MFE -37.30
Consensus MFE -20.17
Energy contribution -21.05
Covariance contribution 0.88
Combinations/Pair 1.14
Mean z-score -2.58
Structure conservation index 0.54
SVM decision value 0.28
SVM RNA-class probability 0.665443
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6271198 96 + 27905053
GCUUUUCCUGCUUUUCCCGCUUUAGCAGCC-UUUGCUGCCUUUGCUGCUCGUGCUGAUAACGUGG----CCAGCAGCGUUGGUCAGCAGUGGUCGGAUAAA
.....(((((((...........))))(((-.((((((((..(((((((.(.(((........))----)))))))))..)).)))))).))).))).... ( -35.70)
>DroSec_CAF1 36421 96 + 1
GCUUUUCCUGCUUUUCCCGCUUUCGCAGCC-UUUGCUGCCUUUGCUGCUCGUGCUGAUAACGUGG----CCAGCAGCGUUGGUCAGCAGUGGUCGGAUAAA
((.......))...(((.((....)).(((-.((((((((..(((((((.(.(((........))----)))))))))..)).)))))).))).))).... ( -35.00)
>DroSim_CAF1 39507 96 + 1
GCUUUUCCUGCUUUUCCCGCUUUCGCAGCC-UUUGCUGCCUUUGCUGCUCGUGCUGAUAACGUGG----CCAGCAGCGUUGGUCAGCAGUGGUCGGAUAAA
((.......))...(((.((....)).(((-.((((((((..(((((((.(.(((........))----)))))))))..)).)))))).))).))).... ( -35.00)
>DroAna_CAF1 42794 95 + 1
GAUUUUGCUUCU------GCUUUCGCAAUAGUAUCCUGGCGCUGCCUCGCCGGCUGAUAACGGGGCCGGCCAACAGCGCUGGUCAGCAGAGGCCGGAUAAA
.(((..((((((------(((...((....))...(..((((((....(((((((........)))))))...))))))..)..)))))))))..)))... ( -43.50)
>consensus
GCUUUUCCUGCUUUUCCCGCUUUCGCAGCC_UUUGCUGCCUUUGCUGCUCGUGCUGAUAACGUGG____CCAGCAGCGUUGGUCAGCAGUGGUCGGAUAAA
((.......)).....(((.....(((((.....)))))....((((((...(((((((((((((....))....))))).)))))))))))))))..... (-20.17 = -21.05 +   0.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 6,271,198 – 6,271,294
Length 96
Sequences 4
Columns 101
Reading direction reverse
Mean pairwise identity 83.25
Mean single sequence MFE -34.73
Consensus MFE -20.42
Energy contribution -21.80
Covariance contribution 1.38
Combinations/Pair 1.08
Mean z-score -2.67
Structure conservation index 0.59
SVM decision value 0.94
SVM RNA-class probability 0.887022
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6271198 96 - 27905053
UUUAUCCGACCACUGCUGACCAACGCUGCUGG----CCACGUUAUCAGCACGAGCAGCAAAGGCAGCAAA-GGCUGCUAAAGCGGGAAAAGCAGGAAAAGC
............(((((..((..(((((((((----(..........)).).))))))...((((((...-.))))))...)..))...)))))....... ( -31.10)
>DroSec_CAF1 36421 96 - 1
UUUAUCCGACCACUGCUGACCAACGCUGCUGG----CCACGUUAUCAGCACGAGCAGCAAAGGCAGCAAA-GGCUGCGAAAGCGGGAAAAGCAGGAAAAGC
....(((..((..(((((.((...((((((((----(..........)).).))))))...)))))))..-))((((....))))........)))..... ( -33.30)
>DroSim_CAF1 39507 96 - 1
UUUAUCCGACCACUGCUGACCAACGCUGCUGG----CCACGUUAUCAGCACGAGCAGCAAAGGCAGCAAA-GGCUGCGAAAGCGGGAAAAGCAGGAAAAGC
....(((..((..(((((.((...((((((((----(..........)).).))))))...)))))))..-))((((....))))........)))..... ( -33.30)
>DroAna_CAF1 42794 95 - 1
UUUAUCCGGCCUCUGCUGACCAGCGCUGUUGGCCGGCCCCGUUAUCAGCCGGCGAGGCAGCGCCAGGAUACUAUUGCGAAAGC------AGAAGCAAAAUC
..((((((((....(((....)))((((((.((((((..........))))))..))))))))).)))))((.((((....))------)).))....... ( -41.20)
>consensus
UUUAUCCGACCACUGCUGACCAACGCUGCUGG____CCACGUUAUCAGCACGAGCAGCAAAGGCAGCAAA_GGCUGCGAAAGCGGGAAAAGCAGGAAAAGC
....(((......(((((.((...((((((((....))..((.....))...))))))...))))))).....((((....))))........)))..... (-20.42 = -21.80 +   1.38)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:29:36 2006