Locus 7631

Sequence ID 3R_DroMel_CAF1
Location 20,443,318 – 20,443,432
Length 114
Max. P 0.995166
window12319 window12320 window12321 window12322

overview

Window 9

Location 20,443,318 – 20,443,416
Length 98
Sequences 6
Columns 104
Reading direction forward
Mean pairwise identity 81.82
Mean single sequence MFE -33.68
Consensus MFE -27.16
Energy contribution -27.22
Covariance contribution 0.06
Combinations/Pair 1.15
Mean z-score -3.59
Structure conservation index 0.81
SVM decision value 1.55
SVM RNA-class probability 0.963493
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20443318 98 + 27905053
CCCU--G----CGUCCCGAUGACGUGAACAACAACGAAAACGAUGAAAAUUUUUGCCAGAGUGCUACAGCAGAUAGCUUCAAUUCUGCUGUGGCACUCCGAACC
....--(----((((.....)))))......((.((....)).)).............(((((((((((((((..........)))))))))))))))...... ( -32.90)
>DroVir_CAF1 31436 95 + 1
---C--A----GAGGCAGACGAUGUGAAUAACAAUGAGAAUAGUGAGAAUUUUUGCCAGAGUGCUACAGCAGAUAGCUUCAAUGCUGCUGUGGCACUCACAACC
---.--.----..((((((((.(((.....))).)).....(((....))))))))).((((((((((((((.((.......))))))))))))))))...... ( -33.30)
>DroGri_CAF1 24472 95 + 1
---U--G----GAAGCGGACGAUGUCAAUAACAAUGAGAAUGGCGAGAAUUUUUGCCAGAGUGCUACUGCAGAUAGCUUCAAUGCUGCUGUAGCACUCGCAACC
---.--(----(..((.(((...)))..............(((((((....)))))))(((((((((.((((.((.......)))))).)))))))))))..)) ( -33.00)
>DroYak_CAF1 26846 98 + 1
CCCA--G----CGUCCCGAUGACGUCAAUAACAACGAAAACGAUGAAAAUUUUUGCCAGAGUGCUACAGCAGAUAGCUUCAAUGCUGCUGUGGCACUCCGAACC
....--(----((((.....)))))......((.((....)).)).............((((((((((((((.((.......))))))))))))))))...... ( -30.30)
>DroMoj_CAF1 24604 95 + 1
---C--G----GAAGCGGACGAUGUGAACAACAAUGAGAAUGGCGAGAAUUUUUGCCAGAGUGCUACAGCAGAUAGCUUCAAUUCUGCUGUGGCACUCACAACC
---(--(----....))..((.(((.....))).))....(((((((....)))))))(((((((((((((((..........)))))))))))))))...... ( -38.00)
>DroAna_CAF1 25599 104 + 1
CCACCACCCCCAAGUCCGAUGAUGUCAACAACAAUGCGAACGGUGAAAAUUUUUGCCAGAGUGCUACAGCAGAUAGCUUCAAUUCUGCUGUGGCACUCCGAACU
.............((.((.((.((....)).))...)).))((..((....))..)).(((((((((((((((..........)))))))))))))))...... ( -34.60)
>consensus
___C__G____GAAGCCGACGAUGUCAACAACAAUGAGAACGGUGAAAAUUUUUGCCAGAGUGCUACAGCAGAUAGCUUCAAUGCUGCUGUGGCACUCCCAACC
.........................................((((((....)))))).((((((((((((((............))))))))))))))...... (-27.16 = -27.22 +   0.06)

alignment

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secondary structure

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Window 0

Location 20,443,318 – 20,443,416
Length 98
Sequences 6
Columns 104
Reading direction reverse
Mean pairwise identity 81.82
Mean single sequence MFE -31.60
Consensus MFE -20.30
Energy contribution -20.47
Covariance contribution 0.17
Combinations/Pair 1.00
Mean z-score -2.31
Structure conservation index 0.64
SVM decision value 0.58
SVM RNA-class probability 0.790145
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20443318 98 - 27905053
GGUUCGGAGUGCCACAGCAGAAUUGAAGCUAUCUGCUGUAGCACUCUGGCAAAAAUUUUCAUCGUUUUCGUUGUUGUUCACGUCAUCGGGACG----C--AGGG
.((.((((((((.((((((((..........)))))))).))))))))))..................(.((((.((((.((....)))))))----)--)).) ( -33.40)
>DroVir_CAF1 31436 95 - 1
GGUUGUGAGUGCCACAGCAGCAUUGAAGCUAUCUGCUGUAGCACUCUGGCAAAAAUUCUCACUAUUCUCAUUGUUAUUCACAUCGUCUGCCUC----U--G---
......((((((.(((((((.((.......))))))))).)))))).((((....................................))))..----.--.--- ( -23.52)
>DroGri_CAF1 24472 95 - 1
GGUUGCGAGUGCUACAGCAGCAUUGAAGCUAUCUGCAGUAGCACUCUGGCAAAAAUUCUCGCCAUUCUCAUUGUUAUUGACAUCGUCCGCUUC----C--A---
((..(((((((((((.((((.((.......)))))).)))))))))((((..........))))........................))..)----)--.--- ( -29.60)
>DroYak_CAF1 26846 98 - 1
GGUUCGGAGUGCCACAGCAGCAUUGAAGCUAUCUGCUGUAGCACUCUGGCAAAAAUUUUCAUCGUUUUCGUUGUUAUUGACGUCAUCGGGACG----C--UGGG
.((.((((((((.(((((((.((.......))))))))).))))))))))........(((.((((((((((......)))).....))))))----.--))). ( -31.70)
>DroMoj_CAF1 24604 95 - 1
GGUUGUGAGUGCCACAGCAGAAUUGAAGCUAUCUGCUGUAGCACUCUGGCAAAAAUUCUCGCCAUUCUCAUUGUUGUUCACAUCGUCCGCUUC----C--G---
((.(((((((((.((((((((..........)))))))).))))..((((..........)))).............)))))....)).....----.--.--- ( -29.30)
>DroAna_CAF1 25599 104 - 1
AGUUCGGAGUGCCACAGCAGAAUUGAAGCUAUCUGCUGUAGCACUCUGGCAAAAAUUUUCACCGUUCGCAUUGUUGUUGACAUCAUCGGACUUGGGGGUGGUGG
.((.((((((((.((((((((..........)))))))).)))))))))).........(((((..(.((...(((.((....)).)))...)).)..))))). ( -42.10)
>consensus
GGUUCGGAGUGCCACAGCAGAAUUGAAGCUAUCUGCUGUAGCACUCUGGCAAAAAUUCUCACCAUUCUCAUUGUUAUUCACAUCAUCGGCAUC____C__G___
.((...((((((.(((((((............))))))).))))))..))...................................................... (-20.30 = -20.47 +   0.17)

alignment

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secondary structure

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Window 1

Location 20,443,336 – 20,443,432
Length 96
Sequences 6
Columns 104
Reading direction forward
Mean pairwise identity 85.95
Mean single sequence MFE -32.89
Consensus MFE -28.65
Energy contribution -29.23
Covariance contribution 0.59
Combinations/Pair 1.12
Mean z-score -4.67
Structure conservation index 0.87
SVM decision value 2.55
SVM RNA-class probability 0.995166
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20443336 96 + 27905053
UGAACAACAACGAAAACGAUGAAAAUUUUUGCCAGAGUGCUACAGCAGAUAGCUUCAAUUCUGCUGUGGCACUCCGAACCAAUAAAAUUGAAGCAA--------
.......((.((....)).)).......((((..(((((((((((((((..........))))))))))))))).....((((...))))..))))-------- ( -29.60)
>DroVir_CAF1 31451 96 + 1
UGAAUAACAAUGAGAAUAGUGAGAAUUUUUGCCAGAGUGCUACAGCAGAUAGCUUCAAUGCUGCUGUGGCACUCACAACCAAAAAAAUUGAAGCAG--------
.......((((((((((.......))))))....((((((((((((((.((.......))))))))))))))))............))))......-------- ( -27.90)
>DroPse_CAF1 35679 104 + 1
UCAACAACAAUGCCAACGAUGAGAAUUUUUGCCAGAGUGCUACAGCAGAUAGCUUCAAUUCUGCUGUGGCACUCCAAACAAACGAAAUUGAAGCAAACGCAGGC
...........(((..((((.......((((...(((((((((((((((..........)))))))))))))))))))........))))..((....)).))) ( -33.86)
>DroGri_CAF1 24487 96 + 1
UCAAUAACAAUGAGAAUGGCGAGAAUUUUUGCCAGAGUGCUACUGCAGAUAGCUUCAAUGCUGCUGUAGCACUCGCAACCAAACAAAUUGAAGCAG--------
(((((...........(((((((....)))))))(((((((((.((((.((.......)))))).)))))))))............))))).....-------- ( -31.90)
>DroMoj_CAF1 24619 96 + 1
UGAACAACAAUGAGAAUGGCGAGAAUUUUUGCCAGAGUGCUACAGCAGAUAGCUUCAAUUCUGCUGUGGCACUCACAACCAACCAAAUUGAAGCAG--------
.......((((.....(((((((....)))))))(((((((((((((((..........)))))))))))))))............))))......-------- ( -37.20)
>DroAna_CAF1 25623 96 + 1
UCAACAACAAUGCGAACGGUGAAAAUUUUUGCCAGAGUGCUACAGCAGAUAGCUUCAAUUCUGCUGUGGCACUCCGAACUGACGAUAUUGAAGCAA--------
.......(((((((...((..((....))..)).(((((((((((((((..........)))))))))))))))........)).)))))......-------- ( -36.90)
>consensus
UCAACAACAAUGAGAACGGUGAGAAUUUUUGCCAGAGUGCUACAGCAGAUAGCUUCAAUUCUGCUGUGGCACUCCCAACCAACAAAAUUGAAGCAA________
.......((((......((((((....)))))).(((((((((((((((..........)))))))))))))))............)))).............. (-28.65 = -29.23 +   0.59)

alignment

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secondary structure

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Window 2

Location 20,443,336 – 20,443,432
Length 96
Sequences 6
Columns 104
Reading direction reverse
Mean pairwise identity 85.95
Mean single sequence MFE -29.27
Consensus MFE -21.77
Energy contribution -22.77
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -2.86
Structure conservation index 0.74
SVM decision value 0.38
SVM RNA-class probability 0.710968
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20443336 96 - 27905053
--------UUGCUUCAAUUUUAUUGGUUCGGAGUGCCACAGCAGAAUUGAAGCUAUCUGCUGUAGCACUCUGGCAAAAAUUUUCAUCGUUUUCGUUGUUGUUCA
--------((((.(((((...)))))..((((((((.((((((((..........)))))))).)))))))))))).......((.((....)).))....... ( -29.30)
>DroVir_CAF1 31451 96 - 1
--------CUGCUUCAAUUUUUUUGGUUGUGAGUGCCACAGCAGCAUUGAAGCUAUCUGCUGUAGCACUCUGGCAAAAAUUCUCACUAUUCUCAUUGUUAUUCA
--------.((((.(((((.....))))).((((((.(((((((.((.......))))))))).)))))).))))............................. ( -24.90)
>DroPse_CAF1 35679 104 - 1
GCCUGCGUUUGCUUCAAUUUCGUUUGUUUGGAGUGCCACAGCAGAAUUGAAGCUAUCUGCUGUAGCACUCUGGCAAAAAUUCUCAUCGUUGGCAUUGUUGUUGA
(((.(((((((((.(((......)))...(((((((.((((((((..........)))))))).))))))))))))).........))).)))........... ( -34.70)
>DroGri_CAF1 24487 96 - 1
--------CUGCUUCAAUUUGUUUGGUUGCGAGUGCUACAGCAGCAUUGAAGCUAUCUGCAGUAGCACUCUGGCAAAAAUUCUCGCCAUUCUCAUUGUUAUUGA
--------..((.((((.....))))..))(((((((((.((((.((.......)))))).)))))))))((((..........))))................ ( -27.50)
>DroMoj_CAF1 24619 96 - 1
--------CUGCUUCAAUUUGGUUGGUUGUGAGUGCCACAGCAGAAUUGAAGCUAUCUGCUGUAGCACUCUGGCAAAAAUUCUCGCCAUUCUCAUUGUUGUUCA
--------..((..((((..(..(((((((((((((.((((((((..........)))))))).))))))..))).........))))..)..))))..))... ( -29.20)
>DroAna_CAF1 25623 96 - 1
--------UUGCUUCAAUAUCGUCAGUUCGGAGUGCCACAGCAGAAUUGAAGCUAUCUGCUGUAGCACUCUGGCAAAAAUUUUCACCGUUCGCAUUGUUGUUGA
--------.....((((((....((((.((((((((.((((((((..........)))))))).))))))))((.................)))))).)))))) ( -30.03)
>consensus
________CUGCUUCAAUUUCGUUGGUUGGGAGUGCCACAGCAGAAUUGAAGCUAUCUGCUGUAGCACUCUGGCAAAAAUUCUCACCAUUCUCAUUGUUGUUCA
.........((((((((.....))))....((((((.((((((((..........)))))))).)))))).))))............................. (-21.77 = -22.77 +   1.00)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:50:44 2006