Locus 6480

Sequence ID 2L_DroMel_CAF1
Location 18,200,177 – 18,200,297
Length 120
Max. P 0.743948
window10341 window10342

overview

Window 1

Location 18,200,177 – 18,200,297
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 83.82
Mean single sequence MFE -46.70
Consensus MFE -36.04
Energy contribution -36.85
Covariance contribution 0.81
Combinations/Pair 1.26
Mean z-score -2.12
Structure conservation index 0.77
SVM decision value 0.46
SVM RNA-class probability 0.743948
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18200177 120 + 22407834
CGGGAAACUCAGCAAAGACUGGGAGAAGCAGCGACAGCGCUGCUGCUGAAAGUGCGCCAUUUGUUGCUGGUGGUGCUGCUUCUGCAGGUAGCGACUGUAGUGCGCCAAAUGCCGUGCAUA
(((....(((((......)))))...(((((((....))))))).)))...(..((.((((((.(((..(..((((((((......)))))).))..)...))).)))))).))..)... ( -46.60)
>DroGri_CAF1 49047 116 + 1
----AAAUUGAGCAGCGAUUGGGAGAAGCAGCGACAGCGCUGCUGUUGAAAGUGCGCCAAUUGCUGCUGCUGAUGCUGCUUCUGUAGGUAGCGACUAUAAUGCGCCAAAUGUCGUGCAUA
----......((((((((((((....(((((((....)))))))((.......)).)))))))))))).....(((((((......)))))))......((((((........)))))). ( -46.10)
>DroWil_CAF1 66506 119 + 1
-GGAAACGUAAGCAGCGAUUGGGAAAAGCAACGACAACGUUGCUGCUGGAAGUGAGCCAACUGCUGUUGCUGAUGUUGCUUCUGCAGGUAGCGACUAUAAUGCGCCAAGUGGCGUGCAUA
-(....)....((((((.((((....(((((((....)))))))((.....))...)))).))))(((((((...((((....)))).)))))))......(((((....)))))))... ( -40.80)
>DroMoj_CAF1 68183 120 + 1
UGGAAAGUUGAGCAGCGAUUGGGAGAAGCAGCGACAGCGCUGCUGCUGAAAGUGAGCCAAUUGCUGCUGCUGAUGCUGCUUCUGCAGGUAGCGGCUAUAGUGGGCCAAGUGUCUAGCAUA
..........((((((((((((....(((((((....)))))))((.....))...))))))))))))((((((((((((......))))))((((......))))....))).)))... ( -50.50)
>DroAna_CAF1 38973 120 + 1
CGGAAAGUUCAGCAAGGACUGGGAGAAGCAGCGACAUCUCUGCUGCUGGAAGUGCGCCAUUUGCUGCUGGUGGUGCUGCUUCUGCAGGUAGCGGCUGUAGUGCGCCAAAUGCCUCGCGUA
.....(((((.....)))))......(((((((.......)))))))((((((((((((((.......)))))))).))))))(((((((..(((........)))...))))).))... ( -43.50)
>DroPer_CAF1 46591 120 + 1
GGGGAAGUUGAGCAGCGACUGGGAGAAGCAGCGGCAACGCUGCUGCUGGAAGUGGGCCAGCUGCUGCUGCUGGUGCUGCUUCUGCAGGUAGCGACUGUAGUGGGCCAGGUGUCGGGCAUA
.........(((((((.((..(.((.(((((((....)))))))(((((.......))))).....)).)..)))))))))((((((.......))))))...(((........)))... ( -52.70)
>consensus
_GGAAAGUUGAGCAGCGACUGGGAGAAGCAGCGACAGCGCUGCUGCUGAAAGUGCGCCAAUUGCUGCUGCUGAUGCUGCUUCUGCAGGUAGCGACUAUAGUGCGCCAAAUGUCGUGCAUA
..........((((((((((((....(((((((....)))))))((.....))...)))))))))))).....(((((((......)))))))......((((((........)))))). (-36.04 = -36.85 +   0.81)

alignment

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secondary structure

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dotplot

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Window 2

Location 18,200,177 – 18,200,297
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 83.82
Mean single sequence MFE -36.72
Consensus MFE -26.67
Energy contribution -26.28
Covariance contribution -0.38
Combinations/Pair 1.31
Mean z-score -1.94
Structure conservation index 0.73
SVM decision value 0.14
SVM RNA-class probability 0.604111
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18200177 120 - 22407834
UAUGCACGGCAUUUGGCGCACUACAGUCGCUACCUGCAGAAGCAGCACCACCAGCAACAAAUGGCGCACUUUCAGCAGCAGCGCUGUCGCUGCUUCUCCCAGUCUUUGCUGAGUUUCCCG
...((.(((((..(((((.((....))))))).(((.(((((((((..(.(((........))).)......((((......))))..)))))))))..)))....))))).))...... ( -36.70)
>DroGri_CAF1 49047 116 - 1
UAUGCACGACAUUUGGCGCAUUAUAGUCGCUACCUACAGAAGCAGCAUCAGCAGCAGCAAUUGGCGCACUUUCAACAGCAGCGCUGUCGCUGCUUCUCCCAAUCGCUGCUCAAUUU----
...((((((....((((((......).))))).....(((((((((..((((.((.((..((((.......))))..)).))))))..))))))))).....))).))).......---- ( -37.70)
>DroWil_CAF1 66506 119 - 1
UAUGCACGCCACUUGGCGCAUUAUAGUCGCUACCUGCAGAAGCAACAUCAGCAACAGCAGUUGGCUCACUUCCAGCAGCAACGUUGUCGUUGCUUUUCCCAAUCGCUGCUUACGUUUCC-
...(((.(((....)))((.........((.....))(((((((((..((((....((.(((((.......))))).))...))))..))))))))).......)))))..........- ( -32.50)
>DroMoj_CAF1 68183 120 - 1
UAUGCUAGACACUUGGCCCACUAUAGCCGCUACCUGCAGAAGCAGCAUCAGCAGCAGCAAUUGGCUCACUUUCAGCAGCAGCGCUGUCGCUGCUUCUCCCAAUCGCUGCUCAACUUUCCA
..((((.((.....(((........))).....((((....))))..))))))(((((.(((((((.......)))(((((((....))))))).....)))).)))))........... ( -36.70)
>DroAna_CAF1 38973 120 - 1
UACGCGAGGCAUUUGGCGCACUACAGCCGCUACCUGCAGAAGCAGCACCACCAGCAGCAAAUGGCGCACUUCCAGCAGCAGAGAUGUCGCUGCUUCUCCCAGUCCUUGCUGAACUUUCCG
...(((((((....(((........)))((.....))(((((((((..((((.((.((.....))((.......)).)).).).))..)))))))))....).))))))........... ( -35.90)
>DroPer_CAF1 46591 120 - 1
UAUGCCCGACACCUGGCCCACUACAGUCGCUACCUGCAGAAGCAGCACCAGCAGCAGCAGCUGGCCCACUUCCAGCAGCAGCGUUGCCGCUGCUUCUCCCAGUCGCUGCUCAACUUCCCC
...((.((((..(((........)))..((.....))(((((((((..((((.((.((.(((((.......))))).)).))))))..)))))))))....))))..))........... ( -40.80)
>consensus
UAUGCACGACACUUGGCGCACUACAGUCGCUACCUGCAGAAGCAGCACCAGCAGCAGCAAUUGGCGCACUUCCAGCAGCAGCGCUGUCGCUGCUUCUCCCAAUCGCUGCUCAACUUUCC_
..(((.........(((........)))((.....))....)))......(.((((((.(((((.........((.(((((((....))))))).)).))))).)))))))......... (-26.67 = -26.28 +  -0.38)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

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