Locus 7697

Sequence ID 3L_DroMel_CAF1
Location 20,599,082 – 20,599,195
Length 113
Max. P 0.723562
window12514 window12515

overview

Window 4

Location 20,599,082 – 20,599,195
Length 113
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 83.16
Mean single sequence MFE -43.32
Consensus MFE -30.38
Energy contribution -30.90
Covariance contribution 0.52
Combinations/Pair 1.16
Mean z-score -1.77
Structure conservation index 0.70
SVM decision value 0.28
SVM RNA-class probability 0.666902
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20599082 113 + 23771897
CGAUGGCAGUGGGCUUCACUUGGCUUUACUCCGGGUUCUCGG-GCUCGCCUCUGUAGCGAUGGGGCAUGCCCCAAAAGCCG--GGCUUCUGGCCCACUCCCAG----UCUUUCCCCGAUC
.(((((.((((((((...(((((((((..(((((....))))-).((((.......))))(((((....))))))))))))--)).....)))))))).))).----))........... ( -48.00)
>DroSec_CAF1 43811 113 + 1
CGAUGGCAGUGGGCUUCACUUGGCUAUACUCCGGGUUCUCGG-GCUCGCCUCUCUAGCGAUGGGGCAUGCCCCAAAAGCCG--GGCUUCUGGCCCACUCCCAG----UCUUUCCCCGAUC
.(((((.((((((((...(((((((....(((((....))))-).((((.......))))(((((....)))))..)))))--)).....)))))))).))).----))........... ( -46.20)
>DroAna_CAF1 66091 100 + 1
CGACGUCAGUGGGCUUCACUUGGUG--------------------UCUCGUCUGUGCCGAAGGGGCAUGCCCCCAAAGCUAUUGCCUUUUGGCCCACUCCCAGGUCUUCUUUCCCCGGGC
.......((((((((.....(((..--------------------(.......)..)))((((((((.((.......))...))))))))))))))))(((.((.........)).))). ( -31.00)
>DroSim_CAF1 37249 113 + 1
CGAUGGCAGUGGGCUUCACUUGGCUUUACUCCGGGUUCUCGG-GCUCGCCUCUCUAGCGAUGGGGCAUGCCCCAAAAGCCG--GGCUUCUGGCCCACUCCCAG----UCUUUCCCCGAUC
.(((((.((((((((...(((((((((..(((((....))))-).((((.......))))(((((....))))))))))))--)).....)))))))).))).----))........... ( -48.00)
>DroEre_CAF1 36395 114 + 1
CGAUGGCAGUGGGCUUCACUUGGCUGUACUCCGAGUUCUCGGGGCUCACCUCUCUAGCGAUGGGGCCUGCCCCAAAAGACA--GGCUUCUGGCCCACUCCCAG----UCUUUCCCCGAUC
.(((((.((((((((((.((.((.((..((((((....))))))..)))).....)).)).((((((((.(......).))--)))))).)))))))).))).----))........... ( -43.40)
>consensus
CGAUGGCAGUGGGCUUCACUUGGCUUUACUCCGGGUUCUCGG_GCUCGCCUCUCUAGCGAUGGGGCAUGCCCCAAAAGCCG__GGCUUCUGGCCCACUCCCAG____UCUUUCCCCGAUC
...(((.((((((((.....(((((.....((((....))))..................(((((....)))))..))))).........)))))))).))).................. (-30.38 = -30.90 +   0.52)

alignment

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secondary structure

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dotplot

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Window 5

Location 20,599,082 – 20,599,195
Length 113
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 83.16
Mean single sequence MFE -45.34
Consensus MFE -35.45
Energy contribution -36.34
Covariance contribution 0.89
Combinations/Pair 1.12
Mean z-score -1.72
Structure conservation index 0.78
SVM decision value 0.41
SVM RNA-class probability 0.723562
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20599082 113 - 23771897
GAUCGGGGAAAGA----CUGGGAGUGGGCCAGAAGCC--CGGCUUUUGGGGCAUGCCCCAUCGCUACAGAGGCGAGC-CCGAGAACCCGGAGUAAAGCCAAGUGAAGCCCACUGCCAUCG
...........((----.(((.(((((((.....((.--.(((((((((((....)))))(((((.....)))))((-(((......))).))))))))..))...))))))).))))). ( -47.10)
>DroSec_CAF1 43811 113 - 1
GAUCGGGGAAAGA----CUGGGAGUGGGCCAGAAGCC--CGGCUUUUGGGGCAUGCCCCAUCGCUAGAGAGGCGAGC-CCGAGAACCCGGAGUAUAGCCAAGUGAAGCCCACUGCCAUCG
...........((----.(((.(((((((.....(((--(((.((((.((((.((((...((....))..)))).))-)).)))).)))).)).....(....)..))))))).))))). ( -46.70)
>DroAna_CAF1 66091 100 - 1
GCCCGGGGAAAGAAGACCUGGGAGUGGGCCAAAAGGCAAUAGCUUUGGGGGCAUGCCCCUUCGGCACAGACGAGA--------------------CACCAAGUGAAGCCCACUGACGUCG
.((((((.........))))))(((((((............(((..(((((....)))))..)))..........--------------------(((...)))..)))))))....... ( -38.60)
>DroSim_CAF1 37249 113 - 1
GAUCGGGGAAAGA----CUGGGAGUGGGCCAGAAGCC--CGGCUUUUGGGGCAUGCCCCAUCGCUAGAGAGGCGAGC-CCGAGAACCCGGAGUAAAGCCAAGUGAAGCCCACUGCCAUCG
...........((----.(((.(((((((.....((.--.(((((((((((....)))))(((((.....)))))((-(((......))).))))))))..))...))))))).))))). ( -47.10)
>DroEre_CAF1 36395 114 - 1
GAUCGGGGAAAGA----CUGGGAGUGGGCCAGAAGCC--UGUCUUUUGGGGCAGGCCCCAUCGCUAGAGAGGUGAGCCCCGAGAACUCGGAGUACAGCCAAGUGAAGCCCACUGCCAUCG
...........((----.(((.(((((((.....(((--(((((....))))))))....(((((.....(((..((.((((....)))).))...))).))))).))))))).))))). ( -47.20)
>consensus
GAUCGGGGAAAGA____CUGGGAGUGGGCCAGAAGCC__CGGCUUUUGGGGCAUGCCCCAUCGCUAGAGAGGCGAGC_CCGAGAACCCGGAGUAAAGCCAAGUGAAGCCCACUGCCAUCG
..................(((.(((((((..(((((.....)))))(((((....)))))(((((.....(((..((.(((......))).))...))).))))).))))))).)))... (-35.45 = -36.34 +   0.89)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:54:12 2006