Locus 691

Sequence ID 2L_DroMel_CAF1
Location 2,010,630 – 2,010,760
Length 130
Max. P 0.965581
window1128 window1129 window1130

overview

Window 8

Location 2,010,630 – 2,010,729
Length 99
Sequences 6
Columns 115
Reading direction forward
Mean pairwise identity 81.87
Mean single sequence MFE -29.37
Consensus MFE -26.27
Energy contribution -26.27
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -2.51
Structure conservation index 0.89
SVM decision value 1.58
SVM RNA-class probability 0.965581
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2010630 99 + 22407834
AAA----CU---A-AUUU-C-------AUUCAGGUUCCACCGAGAUUUGAACUCGGAUCGCAGGAUUCAGAGUCCUGAGUGCUAACCAUUACACCAUGGAACCUCGCUGAUCUUC
...----..---.-...(-(-------(.(.(((((((((((((.......))))).....((.((((((....)))))).)).............)))))))).).)))..... ( -28.50)
>DroVir_CAF1 20063 106 + 1
AAAUAAAAGAAGA-AUUCGA-------ACUCAGGUUCCACCGAGAUUUGAACUCGGAUCGCAGGAUUCAGAGUCCUGAGUGCUAACCAUUACACCAUGGAACCCAUACGAUCU-C
...........((-.(((((-------((((.((.....))))).)))))).))((((((.((.((((((....)))))).))..((((......))))........))))))-. ( -28.10)
>DroPse_CAF1 33553 107 + 1
AAAAAAAAG---A-UUUU-C---AGAAAUCAAGGUUCCACCGAGAUUUGAACUCGGAUCGCAGGAUUCAGAGUCCUGAGUGCUAACCAUUACACCAUGGAACCUCUCUGAACGCC
.........---.-..((-(---(((.....(((((((((((((.......))))).....((.((((((....)))))).)).............)))))))).)))))).... ( -31.80)
>DroGri_CAF1 45605 105 + 1
AAAGGAAAG----------AUCGCUAAGCUCAGGUUCCACCGAGAUUUGAACUCGGAUCGCAGGAUUCAGAGUCCUGAGUGCUAACCAUUACACCAUGGAACCCAUAUGGUCUUC
......(((----------(((((...))...((((((((((((.......))))).....((.((((((....)))))).)).............))))))).....)))))). ( -30.50)
>DroEre_CAF1 25284 95 + 1
AAA----UG---A-ACU------------UCAGGUUCCACCGAGAUUUGAACUCGGAUCGCAGGAUUCAGAGUCCUGAGUGCUAACCAUUACACCAUGGAACCUCACUGAUCUCC
...----..---.-...------------..(((((((((((((.......))))).....((.((((((....)))))).)).............))))))))........... ( -27.00)
>DroAna_CAF1 25546 101 + 1
AAA----GU---AUAUUU-C------GAUUCAGGUUCCACCGAGAUUUGAACUCGGAUCGCAGGAUUCAGAGUCCUGAGUGCUAACCAUUACACCAUGGAACCUCACUGAUCGUG
...----..---......-(------((((.(((((((((((((.......))))).....((.((((((....)))))).)).............))))))))....))))).. ( -30.30)
>consensus
AAA____AG___A_AUUU_C_______AUUCAGGUUCCACCGAGAUUUGAACUCGGAUCGCAGGAUUCAGAGUCCUGAGUGCUAACCAUUACACCAUGGAACCUCUCUGAUCUUC
................................((((((((((((.......))))).....((.((((((....)))))).)).............)))))))............ (-26.27 = -26.27 +   0.00) 

alignment

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secondary structure

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dotplot

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Window 9

Location 2,010,630 – 2,010,729
Length 99
Sequences 6
Columns 115
Reading direction reverse
Mean pairwise identity 81.87
Mean single sequence MFE -30.27
Consensus MFE -26.95
Energy contribution -26.73
Covariance contribution -0.22
Combinations/Pair 1.04
Mean z-score -1.49
Structure conservation index 0.89
SVM decision value 0.45
SVM RNA-class probability 0.741208
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2010630 99 - 22407834
GAAGAUCAGCGAGGUUCCAUGGUGUAAUGGUUAGCACUCAGGACUCUGAAUCCUGCGAUCCGAGUUCAAAUCUCGGUGGAACCUGAAU-------G-AAAU-U---AG----UUU
.....(((...((((((((.(((((........)))))(((((.......)))))....(((((.......)))))))))))))...)-------)-)...-.---..----... ( -29.10)
>DroVir_CAF1 20063 106 - 1
G-AGAUCGUAUGGGUUCCAUGGUGUAAUGGUUAGCACUCAGGACUCUGAAUCCUGCGAUCCGAGUUCAAAUCUCGGUGGAACCUGAGU-------UCGAAU-UCUUCUUUUAUUU
(-.(((((((.((((((..((((((........)))).)).......))))))))))))))((((((.((.(((((......))))))-------).))))-))........... ( -30.60)
>DroPse_CAF1 33553 107 - 1
GGCGUUCAGAGAGGUUCCAUGGUGUAAUGGUUAGCACUCAGGACUCUGAAUCCUGCGAUCCGAGUUCAAAUCUCGGUGGAACCUUGAUUUCU---G-AAAA-U---CUUUUUUUU
((..(((((((((((((((.(((((........)))))(((((.......)))))....(((((.......))))))))))))))....)))---)-))..-)---)........ ( -34.30)
>DroGri_CAF1 45605 105 - 1
GAAGACCAUAUGGGUUCCAUGGUGUAAUGGUUAGCACUCAGGACUCUGAAUCCUGCGAUCCGAGUUCAAAUCUCGGUGGAACCUGAGCUUAGCGAU----------CUUUCCUUU
(((((.(....((((((((.(((((........)))))(((((.......)))))....(((((.......)))))))))))))..((...))).)----------))))..... ( -28.90)
>DroEre_CAF1 25284 95 - 1
GGAGAUCAGUGAGGUUCCAUGGUGUAAUGGUUAGCACUCAGGACUCUGAAUCCUGCGAUCCGAGUUCAAAUCUCGGUGGAACCUGA------------AGU-U---CA----UUU
...((....(.((((((((.(((((........)))))(((((.......)))))....(((((.......))))))))))))).)------------...-)---).----... ( -28.70)
>DroAna_CAF1 25546 101 - 1
CACGAUCAGUGAGGUUCCAUGGUGUAAUGGUUAGCACUCAGGACUCUGAAUCCUGCGAUCCGAGUUCAAAUCUCGGUGGAACCUGAAUC------G-AAAUAU---AC----UUU
..((((...(.((((((((.(((((........)))))(((((.......)))))....(((((.......))))))))))))).))))------)-......---..----... ( -30.00)
>consensus
GAAGAUCAGAGAGGUUCCAUGGUGUAAUGGUUAGCACUCAGGACUCUGAAUCCUGCGAUCCGAGUUCAAAUCUCGGUGGAACCUGAAU_______G_AAAU_U___CU____UUU
...........((((((((.(((((........)))))(((((.......)))))....(((((.......)))))))))))))............................... (-26.95 = -26.73 +  -0.22) 

alignment

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secondary structure

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dotplot

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Window 0

Location 2,010,649 – 2,010,760
Length 111
Sequences 6
Columns 111
Reading direction forward
Mean pairwise identity 78.61
Mean single sequence MFE -27.12
Consensus MFE -18.90
Energy contribution -18.90
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.59
Structure conservation index 0.70
SVM decision value 0.77
SVM RNA-class probability 0.846961
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2010649 111 + 22407834
UCCACCGAGAUUUGAACUCGGAUCGCAGGAUUCAGAGUCCUGAGUGCUAACCAUUACACCAUGGAACCUCGCUGAUCUUCCAAUUUUCUAAAGAGAUCCAAAAAUAGCAAC
....(((((.......)))))....((((((.....))))))..(((((.((((......)))).........((((((.............))))))......))))).. ( -26.32)
>DroPse_CAF1 33580 99 + 1
UCCACCGAGAUUUGAACUCGGAUCGCAGGAUUCAGAGUCCUGAGUGCUAACCAUUACACCAUGGAACCUCUCUGAACGCCG----UGCAAC--------ACCAUUAGCGGU
...((((.((((((....))))))(((((.((((((((((((.(((..........))))).)))....)))))))..)).----)))...--------........)))) ( -28.60)
>DroGri_CAF1 45630 97 + 1
UCCACCGAGAUUUGAACUCGGAUCGCAGGAUUCAGAGUCCUGAGUGCUAACCAUUACACCAUGGAACCCAUAUGGUCUUCCAA----UAAA----------AAAUAGAUAG
....(((((.......)))))(((..((.((((((....)))))).)).............(((((.((....))..))))).----....----------.....))).. ( -22.60)
>DroMoj_CAF1 19098 97 + 1
UCCACCGAGAUUUGAACUCGGAUCGCAGGAUUCAGAGUCCUGAGUGCUAACCAUUACACCAUGGAACCGAUGCGAUCGUUUGU----CAAA----------AAGUCGACAG
.....((((.......))))((((((((.((((((....)))))).))..((((......)))).......))))))...(((----(...----------.....)))). ( -28.20)
>DroAna_CAF1 25567 111 + 1
UCCACCGAGAUUUGAACUCGGAUCGCAGGAUUCAGAGUCCUGAGUGCUAACCAUUACACCAUGGAACCUCACUGAUCGUGCUCUAGUCUUUACAGAUAUAAAAUUAUCUGC
..(((((((.......))))((((.((((((.....))))))((((....((((......)))).....)))))))))))............((((((......)))))). ( -28.40)
>DroPer_CAF1 32419 99 + 1
UCCACCGAGAUUUGAACUCGGAUCGCAGGAUUCAGAGUCCUGAGUGCUAACCAUUACACCAUGGAACCUCUCUGAACGCCG----UGCAAC--------ACCAUUAGCGGU
...((((.((((((....))))))(((((.((((((((((((.(((..........))))).)))....)))))))..)).----)))...--------........)))) ( -28.60)
>consensus
UCCACCGAGAUUUGAACUCGGAUCGCAGGAUUCAGAGUCCUGAGUGCUAACCAUUACACCAUGGAACCUCUCUGAUCGUCC____U_CAAA________A_AAUUAGCGAC
(((((((((.......))))).....((.((((((....)))))).)).............)))).............................................. (-18.90 = -18.90 +   0.00) 

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 09:43:01 2006