Locus 2962

Sequence ID 3L_DroMel_CAF1
Location 8,448,305 – 8,448,453
Length 148
Max. P 0.664239
window4629 window4630

overview

Window 9

Location 8,448,305 – 8,448,425
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 81.06
Mean single sequence MFE -49.97
Consensus MFE -32.12
Energy contribution -32.60
Covariance contribution 0.48
Combinations/Pair 1.26
Mean z-score -1.62
Structure conservation index 0.64
SVM decision value 0.16
SVM RNA-class probability 0.612343
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8448305 120 + 23771897
AAACUCGCACCGGAGCACGCAUGCUGGCAUAGCCAAGUCGAGGAUUGGAUAAUCCAAAGCCAGGUUGAGUGACAUAGCCAUCCGACAGGGAAUGCUCACUGUCGGUGGUGUUGGCCAGAC
...((.(((((((..(((.((..(((((....((.......)).((((.....)))).)))))..)).)))......))..(((((((.((....)).))))))).))))).))...... ( -40.40)
>DroPse_CAF1 3599 120 + 1
AUACCCUCACAGGGGCACGCAUACUGGCAUAGCCGAGGCGCGGAUUGGCAAAUCCAAGGCCCGGCUGUGUGGCAUAGCCAUCGGACAGCGAAUGCUCGCUGUCGGUGGUGUUGGCCAGGC
...(((.....)))....((......(((((((((.(((..(((((....)))))...))))))))))))(((...(((((((.(((((((....))))))))))))))....)))..)) ( -60.00)
>DroGri_CAF1 6551 120 + 1
AGACGCGCACGGGUCCACGCAAGCUGGCAUAGCCGAGACGUGGAGCGGGCUGGCUGCUGCCCGCCUGCGUUGCAUAGCCAUCGGACAGCGAGUGCUCGCUAUCGGUGGUGUUGGCCAGAC
.(((.(....).)))..(....)(((((.((((.(..(((..(.((((((........)))))))..)))..)...((((((((..(((((....))))).))))))))))))))))).. ( -55.40)
>DroWil_CAF1 1386 120 + 1
AAACUCUCACCGGAGCACGCAUACUGGCAUAACCAAGACGAGGAUUAGACAUUCCGCUGCCCGGCUGAGUGGCAUAGCCAUCGGACAAAGAUUGCUCGCUGUCGGUGGUAUUGGCCAAGC
.....((((((((.(((.((....(((.....)))......(((........)))))))))))).))))((((...(((((((.(((..((....))..))))))))))....))))... ( -42.50)
>DroAna_CAF1 1266 120 + 1
AAACCCUCACCGGAGCACGCAUGCUGGCAUAACCCAGACGGGGAUUGGAGAGUCCACCUGCUGACUGGGUGGCGUAGCCAUCGGAGAGCGAGUGCUCGCUAUCGGUGGUGUUGGCCAGGC
....(((..(((..((((....((((((...((((((.(((.(..(((.....)))..).))).)))))).)).))))((((((..(((((....))))).)))))))))))))..))). ( -46.40)
>DroPer_CAF1 3574 120 + 1
AUACCCUCACAGGGGCACGCAUACUGGCAUAGCCGAGGCGCGGAUUGGCAAAUCCAAGGCCCGGCUGUGUGGCAUAGCCAUCGGACAGCGAAUGCUCGCUGUCGGUAGUGUUGGCCAGGC
...(((.....))).........((((((((((((.(((..(((((....)))))...))))))))))..(((((.(((....((((((((....))))))))))).))))).))))).. ( -55.10)
>consensus
AAACCCUCACCGGAGCACGCAUACUGGCAUAGCCGAGACGAGGAUUGGAAAAUCCAAGGCCCGGCUGAGUGGCAUAGCCAUCGGACAGCGAAUGCUCGCUGUCGGUGGUGUUGGCCAGGC
...(((......)))........(((((...((..((.((.((..(((.....)))...)))).))..))..((..((((((.((((((((....))))))))))))))..))))))).. (-32.12 = -32.60 +   0.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 8,448,345 – 8,448,453
Length 108
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 75.58
Mean single sequence MFE -42.07
Consensus MFE -28.41
Energy contribution -28.97
Covariance contribution 0.56
Combinations/Pair 1.17
Mean z-score -1.15
Structure conservation index 0.68
SVM decision value 0.28
SVM RNA-class probability 0.664239
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8448345 108 + 23771897
AGGAUUGGAUAAUCCAAAGCCAGGUUGAGUGACAUAGCCAUCCGACAGGGAAUGCUCACUGUCGGUGGUGUUGGCCAGACUGGAGUCCAGUGCGC---CACUUCCCACCC---------C
.(.(((((((..((((..((((((((....)))...((((.(((((((.((....)).))))))))))).))))).....))))))))))).)..---............---------. ( -37.50)
>DroPse_CAF1 3639 120 + 1
CGGAUUGGCAAAUCCAAGGCCCGGCUGUGUGGCAUAGCCAUCGGACAGCGAAUGCUCGCUGUCGGUGGUGUUGGCCAGGCUGGAGUCCAAGCCGCCUCCAAUUCCUCCACCUCCUGGUCC
.(((((....)))))..((((.(((((((...)))))))....((((((((....))))))))(((((.(((((..((((.((........)))))))))))....)))))....)))). ( -53.40)
>DroWil_CAF1 1426 102 + 1
AGGAUUAGACAUUCCGCUGCCCGGCUGAGUGGCAUAGCCAUCGGACAAAGAUUGCUCGCUGUCGGUGGUAUUGGCCAAGCUGGAAUCUAGCCCGC---------CUCCAC---------C
.(((........)))((((.((((((...((((...(((((((.(((..((....))..))))))))))....))))))))))....))))....---------......---------. ( -33.60)
>DroYak_CAF1 3467 108 + 1
UGGAUUGGAUAAACCAAAGCCAGGUUGAGUGACAUAGCCAUCCGACAGGGAAUGCUCACUGUCGGUGGUGUUGGCCAGACUGGAGUCCAAUGCGC---CACUUCCUGCAC---------C
.(.(((((((...(((..((((((((....)))...((((.(((((((.((....)).))))))))))).))))).....))).))))))).)((---........))..---------. ( -35.90)
>DroAna_CAF1 1306 108 + 1
GGGAUUGGAGAGUCCACCUGCUGACUGGGUGGCGUAGCCAUCGGAGAGCGAGUGCUCGCUAUCGGUGGUGUUGGCCAGGCUGGAGUCCAAGCCUG---UAACUCCUCCAC---------C
.(((..((((.(.((((((.......)))))))((.((((((((..(((((....))))).))))))))....))((((((((...)).))))))---...)))))))..---------. ( -46.20)
>DroPer_CAF1 3614 120 + 1
CGGAUUGGCAAAUCCAAGGCCCGGCUGUGUGGCAUAGCCAUCGGACAGCGAAUGCUCGCUGUCGGUAGUGUUGGCCAGGCUGGAGUCCAAGCCACCUCCAAUUCCUCCACCUCCUGAUCC
.((((..(.........((((.(((((((...)))))))..(.((((((((....)))))))).).......))))(((.(((((...................)))))))).)..)))) ( -45.81)
>consensus
AGGAUUGGAAAAUCCAAAGCCCGGCUGAGUGGCAUAGCCAUCGGACAGCGAAUGCUCGCUGUCGGUGGUGUUGGCCAGGCUGGAGUCCAAGCCGC___CAAUUCCUCCAC_________C
.(((((((.....)).....((((((...((((...((((((.(((((.((....)).)))))))))))....)))))))))))))))................................ (-28.41 = -28.97 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:46:12 2006