Locus 3387

Sequence ID 2L_DroMel_CAF1
Location 9,809,209 – 9,809,404
Length 195
Max. P 0.994154
window5357 window5358 window5359

overview

Window 7

Location 9,809,209 – 9,809,324
Length 115
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 95.42
Mean single sequence MFE -25.43
Consensus MFE -25.10
Energy contribution -25.10
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.40
Structure conservation index 0.99
SVM decision value 2.45
SVM RNA-class probability 0.994154
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 9809209 115 + 22407834
UUGC-----CACUUUACCUGAUUUCCAUCGUAAGUCCAACUACCGAAUUUCAUUUCGCAAUGUUGGUCAUCAAAUGGGAACCACGUGAUGUCUAUCUUGCAUGUGCUCUUGAAGAUACCA
....-----.((.((((.((.(((((((.....(.(((((...((((......))))....))))).).....))))))).)).)))).)).((((((.((........))))))))... ( -25.10)
>DroVir_CAF1 26951 114 + 1
-AAA-----CACUUUACCUGAUUUCCAUCGUAAGUCCAACUACCGAAUUUCAUUUCGCAAUGUUGGUCAUCAAAUGGGAACCACGUGAUGUCUAUCUUGCAUGUGCUCUUGAAGAUACCA
-...-----.((.((((.((.(((((((.....(.(((((...((((......))))....))))).).....))))))).)).)))).)).((((((.((........))))))))... ( -25.10)
>DroGri_CAF1 20059 114 + 1
-AAA-----CACUUUACCUGAUUUCCAUCGUAAGUCCAACUACCGAAUUUCAUUUCGCAAUGUUGGUCAUCAAAUGGGAACCACGUGAUGUCUAUCUUGCAUGUGCUCUUGAAGAUACCA
-...-----.((.((((.((.(((((((.....(.(((((...((((......))))....))))).).....))))))).)).)))).)).((((((.((........))))))))... ( -25.10)
>DroWil_CAF1 25913 120 + 1
UUGCCAAAACACUUUACCUGAUUUCCAUCGUAAGUCCAACUACCGAAUUUCAUUUCGCAAUGUUGGUCAUCAAAUGGGAACCACGUGAUGUCUAUCUUGCAUGUGCUCUUGAAGAUACCA
..........((.((((.((.(((((((.....(.(((((...((((......))))....))))).).....))))))).)).)))).)).((((((.((........))))))))... ( -25.10)
>DroMoj_CAF1 21557 114 + 1
-AAA-----CACUUUACCUGAUUUCCAUCGUAAGUCCAACUACCGAAUUUCAUUUCGCAAUGUUGGUCAUCAAAUGGGAACCACGUGAUGUCUAUCUUGCAUGUGCUCUUGAAGAUACCA
-...-----.((.((((.((.(((((((.....(.(((((...((((......))))....))))).).....))))))).)).)))).)).((((((.((........))))))))... ( -25.10)
>DroAna_CAF1 18369 120 + 1
UUGCUUUUGCACUUUACCUGAUUUCCAUCGUAAGUCCAACUACCGAAUUUCAUUUCGCAAUGUUGGUCAUCAAAUGGGAACCACGUGAUGUCUAUCUUGCAUGUGCUCUUGAAGAUACCA
.(((....)))..((((.((.(((((((.....(.(((((...((((......))))....))))).).....))))))).)).))))(((((.((..((....))....)))))))... ( -27.10)
>consensus
_AAA_____CACUUUACCUGAUUUCCAUCGUAAGUCCAACUACCGAAUUUCAUUUCGCAAUGUUGGUCAUCAAAUGGGAACCACGUGAUGUCUAUCUUGCAUGUGCUCUUGAAGAUACCA
..........((.((((.((.(((((((.....(.(((((...((((......))))....))))).).....))))))).)).)))).)).((((((.((........))))))))... (-25.10 = -25.10 +  -0.00)

alignment

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secondary structure

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dotplot

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Window 8

Location 9,809,244 – 9,809,364
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 100.00
Mean single sequence MFE -32.20
Consensus MFE -32.20
Energy contribution -32.20
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -0.95
Structure conservation index 1.00
SVM decision value 1.04
SVM RNA-class probability 0.904596
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 9809244 120 + 22407834
UACCGAAUUUCAUUUCGCAAUGUUGGUCAUCAAAUGGGAACCACGUGAUGUCUAUCUUGCAUGUGCUCUUGAAGAUACCAGGGGGCACGUACAGACAACUGCCGUUAUGUUUGACCACAA
....(((......)))((((.(.(((.(((((..(((...)))..))))).))).)))))((((((((((..........)))))))))).((((((((....))..))))))....... ( -32.20)
>DroWil_CAF1 25953 120 + 1
UACCGAAUUUCAUUUCGCAAUGUUGGUCAUCAAAUGGGAACCACGUGAUGUCUAUCUUGCAUGUGCUCUUGAAGAUACCAGGGGGCACGUACAGACAACUGCCGUUAUGUUUGACCACAA
....(((......)))((((.(.(((.(((((..(((...)))..))))).))).)))))((((((((((..........)))))))))).((((((((....))..))))))....... ( -32.20)
>DroYak_CAF1 18445 120 + 1
UACCGAAUUUCAUUUCGCAAUGUUGGUCAUCAAAUGGGAACCACGUGAUGUCUAUCUUGCAUGUGCUCUUGAAGAUACCAGGGGGCACGUACAGACAACUGCCGUUAUGUUUGACCACAA
....(((......)))((((.(.(((.(((((..(((...)))..))))).))).)))))((((((((((..........)))))))))).((((((((....))..))))))....... ( -32.20)
>DroMoj_CAF1 21591 120 + 1
UACCGAAUUUCAUUUCGCAAUGUUGGUCAUCAAAUGGGAACCACGUGAUGUCUAUCUUGCAUGUGCUCUUGAAGAUACCAGGGGGCACGUACAGACAACUGCCGUUAUGUUUGACCACAA
....(((......)))((((.(.(((.(((((..(((...)))..))))).))).)))))((((((((((..........)))))))))).((((((((....))..))))))....... ( -32.20)
>DroAna_CAF1 18409 120 + 1
UACCGAAUUUCAUUUCGCAAUGUUGGUCAUCAAAUGGGAACCACGUGAUGUCUAUCUUGCAUGUGCUCUUGAAGAUACCAGGGGGCACGUACAGACAACUGCCGUUAUGUUUGACCACAA
....(((......)))((((.(.(((.(((((..(((...)))..))))).))).)))))((((((((((..........)))))))))).((((((((....))..))))))....... ( -32.20)
>DroPer_CAF1 19708 120 + 1
UACCGAAUUUCAUUUCGCAAUGUUGGUCAUCAAAUGGGAACCACGUGAUGUCUAUCUUGCAUGUGCUCUUGAAGAUACCAGGGGGCACGUACAGACAACUGCCGUUAUGUUUGACCACAA
....(((......)))((((.(.(((.(((((..(((...)))..))))).))).)))))((((((((((..........)))))))))).((((((((....))..))))))....... ( -32.20)
>consensus
UACCGAAUUUCAUUUCGCAAUGUUGGUCAUCAAAUGGGAACCACGUGAUGUCUAUCUUGCAUGUGCUCUUGAAGAUACCAGGGGGCACGUACAGACAACUGCCGUUAUGUUUGACCACAA
....(((......)))((((.(.(((.(((((..(((...)))..))))).))).)))))((((((((((..........)))))))))).((((((((....))..))))))....... (-32.20 = -32.20 +  -0.00)

alignment

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secondary structure

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dotplot

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Window 9

Location 9,809,284 – 9,809,404
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 100.00
Mean single sequence MFE -37.01
Consensus MFE -37.01
Energy contribution -37.01
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -0.97
Structure conservation index 1.00
SVM decision value 1.10
SVM RNA-class probability 0.915455
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 9809284 120 - 22407834
AGCGCGGAUGAGGGAUUCGAUGGCACGUAUCACACCAACAUUGUGGUCAAACAUAACGGCAGUUGUCUGUACGUGCCCCCUGGUAUCUUCAAGAGCACAUGCAAGAUAGACAUCACGUGG
..((((((((((((.......((((((((.((...((((..(((.((........)).)))))))..))))))))))))))..((((((((........)).))))))..)))).)))). ( -37.01)
>DroWil_CAF1 25993 120 - 1
AGCGCGGAUGAGGGAUUCGAUGGCACGUAUCACACCAACAUUGUGGUCAAACAUAACGGCAGUUGUCUGUACGUGCCCCCUGGUAUCUUCAAGAGCACAUGCAAGAUAGACAUCACGUGG
..((((((((((((.......((((((((.((...((((..(((.((........)).)))))))..))))))))))))))..((((((((........)).))))))..)))).)))). ( -37.01)
>DroYak_CAF1 18485 120 - 1
AGCGCGGAUGAGGGAUUCGAUGGCACGUAUCACACCAACAUUGUGGUCAAACAUAACGGCAGUUGUCUGUACGUGCCCCCUGGUAUCUUCAAGAGCACAUGCAAGAUAGACAUCACGUGG
..((((((((((((.......((((((((.((...((((..(((.((........)).)))))))..))))))))))))))..((((((((........)).))))))..)))).)))). ( -37.01)
>DroMoj_CAF1 21631 120 - 1
AGCGCGGAUGAGGGAUUCGAUGGCACGUAUCACACCAACAUUGUGGUCAAACAUAACGGCAGUUGUCUGUACGUGCCCCCUGGUAUCUUCAAGAGCACAUGCAAGAUAGACAUCACGUGG
..((((((((((((.......((((((((.((...((((..(((.((........)).)))))))..))))))))))))))..((((((((........)).))))))..)))).)))). ( -37.01)
>DroAna_CAF1 18449 120 - 1
AGCGCGGAUGAGGGAUUCGAUGGCACGUAUCACACCAACAUUGUGGUCAAACAUAACGGCAGUUGUCUGUACGUGCCCCCUGGUAUCUUCAAGAGCACAUGCAAGAUAGACAUCACGUGG
..((((((((((((.......((((((((.((...((((..(((.((........)).)))))))..))))))))))))))..((((((((........)).))))))..)))).)))). ( -37.01)
>DroPer_CAF1 19748 120 - 1
AGCGCGGAUGAGGGAUUCGAUGGCACGUAUCACACCAACAUUGUGGUCAAACAUAACGGCAGUUGUCUGUACGUGCCCCCUGGUAUCUUCAAGAGCACAUGCAAGAUAGACAUCACGUGG
..((((((((((((.......((((((((.((...((((..(((.((........)).)))))))..))))))))))))))..((((((((........)).))))))..)))).)))). ( -37.01)
>consensus
AGCGCGGAUGAGGGAUUCGAUGGCACGUAUCACACCAACAUUGUGGUCAAACAUAACGGCAGUUGUCUGUACGUGCCCCCUGGUAUCUUCAAGAGCACAUGCAAGAUAGACAUCACGUGG
..((((((((((((.......((((((((.((...((((..(((.((........)).)))))))..))))))))))))))..((((((((........)).))))))..)))).)))). (-37.01 = -37.01 +   0.00)

alignment

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secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:51:12 2006