Locus 7183

Sequence ID 3L_DroMel_CAF1
Location 19,262,583 – 19,262,715
Length 132
Max. P 0.917264
window11666 window11667 window11668

overview

Window 6

Location 19,262,583 – 19,262,696
Length 113
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 73.47
Mean single sequence MFE -43.03
Consensus MFE -21.64
Energy contribution -21.45
Covariance contribution -0.19
Combinations/Pair 1.59
Mean z-score -2.00
Structure conservation index 0.50
SVM decision value 1.11
SVM RNA-class probability 0.917264
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19262583 113 + 23771897
GCAUUACGAGCCAAAGCUUCCGGAUUGGUGUCGUCAGGCGGUGGAGAUAGCCGCUCUCCUUCACGACAUUGGUCACGGACCAAUGUCACAUGCCUGGGAG----UUGGUGACCCACC
((...(((((((((..(....)..))))).))))...))(((((.(...((((..(((((.((.((((((((((...))))))))))...))...)))))----.))))..)))))) ( -42.90)
>DroPse_CAF1 33631 113 + 1
UAAAUAUGAGACUAAGCUGCCCGAUUGGUGUCGAAAGGCGGUAGAGAUAGCAGCUCUUCUGCACGACAUCGGUCACGGACCGAUGUCGCAUGCCUGGGAA----AAAGCUUCCCAUA
........(((...((((((....(((.((((....)))).))).....))))))..)))((((((((((((((...)))))))))))..))).((((((----.....)))))).. ( -45.20)
>DroEre_CAF1 95544 113 + 1
GCACUACGAGCCAAAACUUCCGGACUGGUGUCGUCAGGCGGUGGAGAUAGCCGCCCUCCUUCACGACAUUGGACAUGGGCCAGUGUCGCACACCUGGGAG----UUGGCGAGCCAUC
.........((((..((((((((....((((.....((((((.......)))))).........((((((((.......))))))))))))..)))))))----)))))........ ( -43.30)
>DroMoj_CAF1 40791 113 + 1
CAACUACGAGCGAGAGCUGCCCGAAUGGUGCCGUCGAUCGGUGGAGAUUGCGGCGCUGCUGCACGAUGUCGGACAUGGUCCAUUUUCGCAUUACUGGGAA----CAAGUUUGUGGCG
...((((((((((((((.((......(((((((.(((((......)))))))))))))).))........((((...))))..)))))).....((....----))...)))))).. ( -38.80)
>DroAna_CAF1 81425 113 + 1
GCACUAUGAGCCAAAACUACCGGAUUGGUGUCGCCAAGCGGUGGAAAUAGCCGCUCUACUUCACGAUAUUGGCCAUGGGCCAAUGUCACAUGCUUGGGAACGUCUUGGUGA----AC
.(((((.(((((((..(....)..)))))((..(((((((((((......))))).........((((((((((...))))))))))....))))))..)).)).))))).----.. ( -42.70)
>DroPer_CAF1 33727 113 + 1
UAAAUAUGAGACUAAGCUGCCCGAUUGGUGUCGAAAGGCGGUAGAGAUAGCAGCUCUCCUGCACGACAUCGGUCACGGACCGAUGUCGCAUGCCUGGGAA----AAAGCUUCCCAUA
.......((((....(((((....(((.((((....)))).))).....)))))))))..((((((((((((((...)))))))))))..))).((((((----.....)))))).. ( -45.30)
>consensus
GAACUACGAGCCAAAGCUGCCCGAUUGGUGUCGUCAGGCGGUGGAGAUAGCCGCUCUCCUGCACGACAUCGGUCACGGACCAAUGUCGCAUGCCUGGGAA____UAAGCGACCCAUC
...............(((....(((....))).(((((((((((((.......)))).......((((((((((...)))))))))))).))))))).........)))........ (-21.64 = -21.45 +  -0.19)

alignment

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secondary structure

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dotplot

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Window 7

Location 19,262,583 – 19,262,696
Length 113
Sequences 6
Columns 117
Reading direction reverse
Mean pairwise identity 73.47
Mean single sequence MFE -40.78
Consensus MFE -20.05
Energy contribution -20.17
Covariance contribution 0.12
Combinations/Pair 1.44
Mean z-score -1.96
Structure conservation index 0.49
SVM decision value 0.92
SVM RNA-class probability 0.881709
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19262583 113 - 23771897
GGUGGGUCACCAA----CUCCCAGGCAUGUGACAUUGGUCCGUGACCAAUGUCGUGAAGGAGAGCGGCUAUCUCCACCGCCUGACGACACCAAUCCGGAAGCUUUGGCUCGUAAUGC
((((...))))..----....(((((....((((((((((...)))))))))).....(((((.......)))))...)))))((((..((((..(....)..)))).))))..... ( -45.00)
>DroPse_CAF1 33631 113 - 1
UAUGGGAAGCUUU----UUCCCAGGCAUGCGACAUCGGUCCGUGACCGAUGUCGUGCAGAAGAGCUGCUAUCUCUACCGCCUUUCGACACCAAUCGGGCAGCUUAGUCUCAUAUUUA
(((((((((((..----..(((((((..((((((((((((...))))))))))))((((.....))))..........))))...((......))))).))))...))))))).... ( -43.80)
>DroEre_CAF1 95544 113 - 1
GAUGGCUCGCCAA----CUCCCAGGUGUGCGACACUGGCCCAUGUCCAAUGUCGUGAAGGAGGGCGGCUAUCUCCACCGCCUGACGACACCAGUCCGGAAGUUUUGGCUCGUAGUGC
((((((.((((..----((((......(((((((.((((....).))).)))))))..))))))))))))))......(((((.(((..((((..(....)..)))).)))))).)) ( -43.30)
>DroMoj_CAF1 40791 113 - 1
CGCCACAAACUUG----UUCCCAGUAAUGCGAAAAUGGACCAUGUCCGACAUCGUGCAGCAGCGCCGCAAUCUCCACCGAUCGACGGCACCAUUCGGGCAGCUCUCGCUCGUAGUUG
.((.((.......----(((.((....)).)))..(((((...))))).....))))..(((((((((.(((......))).).))))......(((((.......)))))..)))) ( -27.40)
>DroAna_CAF1 81425 113 - 1
GU----UCACCAAGACGUUCCCAAGCAUGUGACAUUGGCCCAUGGCCAAUAUCGUGAAGUAGAGCGGCUAUUUCCACCGCUUGGCGACACCAAUCCGGUAGUUUUGGCUCAUAGUGC
..----...((((((((((.((((((....((.(((((((...))))))).))(((((((((.....)))))).))).)))))).)))(((.....))).))))))).......... ( -40.90)
>DroPer_CAF1 33727 113 - 1
UAUGGGAAGCUUU----UUCCCAGGCAUGCGACAUCGGUCCGUGACCGAUGUCGUGCAGGAGAGCUGCUAUCUCUACCGCCUUUCGACACCAAUCGGGCAGCUUAGUCUCAUAUUUA
(((((((((((..----..(((((((..((((((((((((...))))))))))))...((((((.......)))).))))))...((......))))).))))...))))))).... ( -44.30)
>consensus
GAUGGGAAACCAA____UUCCCAGGCAUGCGACAUUGGUCCAUGACCAAUGUCGUGAAGGAGAGCGGCUAUCUCCACCGCCUGACGACACCAAUCCGGCAGCUUUGGCUCAUAGUGC
.....................(((((....((((((((((...))))))))))(((.(((((.....)).))).))).)))))......((.....))................... (-20.05 = -20.17 +   0.12)

alignment

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secondary structure

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dotplot

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Window 8

Location 19,262,620 – 19,262,715
Length 95
Sequences 6
Columns 109
Reading direction forward
Mean pairwise identity 71.85
Mean single sequence MFE -33.45
Consensus MFE -15.07
Energy contribution -14.22
Covariance contribution -0.86
Combinations/Pair 1.53
Mean z-score -1.77
Structure conservation index 0.45
SVM decision value 0.31
SVM RNA-class probability 0.682853
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19262620 95 + 23771897
GCGGUGGAGAUAGCCGCUCUCCUUCACGACAUUGGUCACGGACCAAUGUCACAUGCCUGGGAGUUGGUGACCCACCAUGAAUUUGAUGUAAGUU--A------------
..(((((.(...((((..(((((.((.((((((((((...))))))))))...))...))))).))))..))))))..................--.------------ ( -34.50)
>DroPse_CAF1 33668 107 + 1
GCGGUAGAGAUAGCAGCUCUUCUGCACGACAUCGGUCACGGACCGAUGUCGCAUGCCUGGGAAAAAGCUUCCCAUAACAAAUUCAAUGUAAGAUUCGUGGUCUUGGA--
((((.((((.......)))).)))).(((((((((((...)))))))))))....((((((((.....))))))...............(((((.....))))))).-- ( -38.10)
>DroSim_CAF1 102967 95 + 1
GCGGUGGAGAUAGCCGCUCUCCUUCACGACAUUGGACACGGACCAAUGUCACAUGCCUGGGAGUUGGUAACCAACCAUGAAUUUGAUGUAAGUU--A------------
(((((.......))))).(((((.((.((((((((.......))))))))...))...))))).((((.....)))).................--.------------ ( -26.40)
>DroEre_CAF1 95581 103 + 1
GCGGUGGAGAUAGCCGCCCUCCUUCACGACAUUGGACAUGGGCCAGUGUCGCACACCUGGGAGUUGGCGAGCCAUCAUGAAUUUGAUGUAAGUA--A---ACCUGCA-G
((((.(......(((((((((((...(((((((((.......))))))))).......)))))..)))).))(((((......)))))......--.---.))))).-. ( -37.10)
>DroWil_CAF1 11600 106 + 1
GCUGUAGAAAUAGCCGCACUUUUACAUGACAUAGGACAUGGAGCAUUUUCGCAUGUCUGGGAAUGUGUGUGCCAGGGUCAAUUUGAUGUAAGUAUAG---AAUAGAAAG
(((((....))))).((((...(((((..(...((((((((((....))).))))))).)..))))).))))..(.(((.....))).)........---......... ( -26.50)
>DroPer_CAF1 33764 107 + 1
GCGGUAGAGAUAGCAGCUCUCCUGCACGACAUCGGUCACGGACCGAUGUCGCAUGCCUGGGAAAAAGCUUCCCAUAACAAAUUCAAUGUAAGAUUCGUGGUCUUGGA--
((((.((((.......)))).)))).(((((((((((...)))))))))))....((((((((.....))))))...............(((((.....))))))).-- ( -38.10)
>consensus
GCGGUAGAGAUAGCCGCUCUCCUUCACGACAUUGGACACGGACCAAUGUCGCAUGCCUGGGAAUUGGCGACCCAUCAUGAAUUUGAUGUAAGUU__A____CUUG_A__
((..........))((((.((((...(((((((((.......))))))))).......))))...))))........................................ (-15.07 = -14.22 +  -0.86)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:40:16 2006