Locus 8007

Sequence ID 3L_DroMel_CAF1
Location 21,122,933 – 21,123,133
Length 200
Max. P 0.997330
window13075 window13076 window13077 window13078

overview

Window 5

Location 21,122,933 – 21,123,053
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 94.75
Mean single sequence MFE -51.32
Consensus MFE -45.52
Energy contribution -44.92
Covariance contribution -0.60
Combinations/Pair 1.12
Mean z-score -1.71
Structure conservation index 0.89
SVM decision value 1.73
SVM RNA-class probability 0.974610
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21122933 120 + 23771897
CGAGCUUUGGGGUUCCAGGCAGCGGGUGAUGUUGCAGCUGCUGUUGGCUCAGAUGCUGCUGCUGACUUAGGUGUUGCUGCUCGGCGCUGUAGCUGCGCAGCGGUUCCAAAUAGCUCGGUG
((((((....((..((.((((.(((((.(.((.(((((..(((......)))..))))).))).)))).).))))(((((.((((......)))).)))))))..))....))))))... ( -52.40)
>DroSec_CAF1 173646 120 + 1
CGAGCUUUGGGGUUCCAGGCAGCGGGUGAUGUUGCAGCUGCUGUUGGUUCAGAUGCUGCUGUUGACUCAAGUGUUGCUGCUCGGCGCUGUAGCUGCGCAGCGGUUCCAGAUAGCUGGGUG
.(((((....)))))..(((((((..(((.((((((((..(((......)))..)))))....))))))..)))))))(((((((.(((.((((((...)))))).)))...))))))). ( -47.90)
>DroSim_CAF1 85338 120 + 1
CGAGCUUUGGAGUUCCAGGCAGCGGGUGAUGUUGCAGCUGCUGCUGGCUCAGAUGCUGCUGCUGACUAAGGUGUUGCUGCUCGGCGCUGUAGCUGCGCAUCGGUUCCAGAUAGCUGGGUG
.(((((.(((....)))((((((((.((......)).))))))))))))).(((((.((.((((.....(((((((.....))))))).)))).)))))))...(((((....))))).. ( -51.80)
>DroEre_CAF1 96064 120 + 1
CGAGCUUUGGGGUUCCAGGCAGCGGGUGAUGUUGCAGCUGCUGUUGGCUCAAAUGCUGCUGCUGACUGUGGUGUUGCUGCUCGGCGCUGUAGCUGCGCAGCGGUUCCAGAUAGCUGGGUG
.(((((.(((....)))((((((((.((......)).)))))))))))))....(((((((((..(((..((((((.....))))))..)))..).))))))))(((((....))))).. ( -51.50)
>DroYak_CAF1 67021 120 + 1
CGAGCUUUGGGGUUCCAGGCAGCGGCUGAUGUUGCAGUUGCUGUUGGCUCAAAUGCUGCUGCUGACUUAGGUGUUGCUGCUCGGCGCUGUAGCUGCGCAGCGGUUCCAGGUAGCUGGGUG
.(((((.(((....)))(((((((((((......))))))))))))))))..((.(.((((((......((..(((((((.((((......)))).)))))))..)).)))))).).)). ( -53.00)
>consensus
CGAGCUUUGGGGUUCCAGGCAGCGGGUGAUGUUGCAGCUGCUGUUGGCUCAGAUGCUGCUGCUGACUUAGGUGUUGCUGCUCGGCGCUGUAGCUGCGCAGCGGUUCCAGAUAGCUGGGUG
(.((((((((((..((((.((((((.((......)).))))))))))..)....((((((((..((....))((.(((((........))))).)))))))))))))))..)))).)... (-45.52 = -44.92 +  -0.60)

alignment

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secondary structure

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dotplot

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Window 6

Location 21,122,933 – 21,123,053
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 94.75
Mean single sequence MFE -35.10
Consensus MFE -31.60
Energy contribution -31.76
Covariance contribution 0.16
Combinations/Pair 1.03
Mean z-score -1.43
Structure conservation index 0.90
SVM decision value 1.02
SVM RNA-class probability 0.902275
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21122933 120 - 23771897
CACCGAGCUAUUUGGAACCGCUGCGCAGCUACAGCGCCGAGCAGCAACACCUAAGUCAGCAGCAGCAUCUGAGCCAACAGCAGCUGCAACAUCACCCGCUGCCUGGAACCCCAAAGCUCG
...((((((..((((...(((((........)))))(((.(((((.........(....).(((((..(((......)))..)))))..........))))).)))....)))))))))) ( -41.00)
>DroSec_CAF1 173646 120 - 1
CACCCAGCUAUCUGGAACCGCUGCGCAGCUACAGCGCCGAGCAGCAACACUUGAGUCAACAGCAGCAUCUGAACCAACAGCAGCUGCAACAUCACCCGCUGCCUGGAACCCCAAAGCUCG
.....((((...(((...(((((........)))))(((.(((((......((......))(((((..(((......)))..)))))..........))))).)))....))).)))).. ( -34.40)
>DroSim_CAF1 85338 120 - 1
CACCCAGCUAUCUGGAACCGAUGCGCAGCUACAGCGCCGAGCAGCAACACCUUAGUCAGCAGCAGCAUCUGAGCCAGCAGCAGCUGCAACAUCACCCGCUGCCUGGAACUCCAAAGCUCG
...((((....)))).......((((.......))))(((((.((.((......))..)).(((((...(((..((((....)))).....)))...))))).(((....)))..))))) ( -33.90)
>DroEre_CAF1 96064 120 - 1
CACCCAGCUAUCUGGAACCGCUGCGCAGCUACAGCGCCGAGCAGCAACACCACAGUCAGCAGCAGCAUUUGAGCCAACAGCAGCUGCAACAUCACCCGCUGCCUGGAACCCCAAAGCUCG
.....((((...(((...(((((........)))))(((.(((((.((......))..(((((.((..(((...)))..)).)))))..........))))).)))....))).)))).. ( -33.50)
>DroYak_CAF1 67021 120 - 1
CACCCAGCUACCUGGAACCGCUGCGCAGCUACAGCGCCGAGCAGCAACACCUAAGUCAGCAGCAGCAUUUGAGCCAACAGCAACUGCAACAUCAGCCGCUGCCUGGAACCCCAAAGCUCG
...((((....))))....(((((((.((....))((......)).............)).)))))....((((...((((..(((......)))..))))..(((....)))..)))). ( -32.70)
>consensus
CACCCAGCUAUCUGGAACCGCUGCGCAGCUACAGCGCCGAGCAGCAACACCUAAGUCAGCAGCAGCAUCUGAGCCAACAGCAGCUGCAACAUCACCCGCUGCCUGGAACCCCAAAGCUCG
.....((((...(((...(((((........)))))(((.(((((.........(....).(((((..(((......)))..)))))..........))))).)))....))).)))).. (-31.60 = -31.76 +   0.16)

alignment

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secondary structure

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dotplot

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Window 7

Location 21,122,973 – 21,123,093
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 92.92
Mean single sequence MFE -53.94
Consensus MFE -48.36
Energy contribution -48.12
Covariance contribution -0.24
Combinations/Pair 1.16
Mean z-score -2.06
Structure conservation index 0.90
SVM decision value 2.84
SVM RNA-class probability 0.997330
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21122973 120 + 23771897
CUGUUGGCUCAGAUGCUGCUGCUGACUUAGGUGUUGCUGCUCGGCGCUGUAGCUGCGCAGCGGUUCCAAAUAGCUCGGUGGCAACACGGUGCGAUUUGGAGCGGGCGUGGAGGAUCUGCC
.....(((..((((.((.(((((...........((((((.((((......)))).))))))(((((((((.((.(.(((....))).).)).))))))))).)))).).)).))))))) ( -54.00)
>DroSec_CAF1 173686 120 + 1
CUGUUGGUUCAGAUGCUGCUGUUGACUCAAGUGUUGCUGCUCGGCGCUGUAGCUGCGCAGCGGUUCCAGAUAGCUGGGUGGCAACACGGUGCGAUUUGGCGCUGGCGUCGAGGAUCUGCC
..((.(((((.((((((.............(((((((..((((((.(((.((((((...)))))).)))...))))))..)))))))(((((......)))))))))))..))))).)). ( -56.10)
>DroSim_CAF1 85378 120 + 1
CUGCUGGCUCAGAUGCUGCUGCUGACUAAGGUGUUGCUGCUCGGCGCUGUAGCUGCGCAUCGGUUCCAGAUAGCUGGGUGGCAACACGGUGCGAUUUGGCGCUGGCGUCGAGGAUCUGCC
..((.((((..((((((.............(((((((..((((((.(((.(((((.....))))).)))...))))))..)))))))(((((......)))))))))))..)).)).)). ( -51.70)
>DroEre_CAF1 96104 120 + 1
CUGUUGGCUCAAAUGCUGCUGCUGACUGUGGUGUUGCUGCUCGGCGCUGUAGCUGCGCAGCGGUUCCAGAUAGCUGGGUGGCAGCACAGUGCGAUUUGGAGCUGGCGUGGAGGACCUACC
..((..((((...((((((..((.(((((((..(((((((.((((......)))).)))))))..)))..))).).))..))))))(((......)))))))..))((((.....)))). ( -54.70)
>DroYak_CAF1 67061 120 + 1
CUGUUGGCUCAAAUGCUGCUGCUGACUUAGGUGUUGCUGCUCGGCGCUGUAGCUGCGCAGCGGUUCCAGGUAGCUGGGUGGCAACACGGUGCGAUUUGGAGCUGGCGUGGAGGAUCUACC
..((..((((((((((.(((.(((...)))(((((((..((((((.(((.((((((...)))))).)))...))))))..)))))))))))).)))).))))..))((((.....)))). ( -53.20)
>consensus
CUGUUGGCUCAGAUGCUGCUGCUGACUUAGGUGUUGCUGCUCGGCGCUGUAGCUGCGCAGCGGUUCCAGAUAGCUGGGUGGCAACACGGUGCGAUUUGGAGCUGGCGUGGAGGAUCUGCC
..((..((((((((((.(((.((.....))(((((((..((((((.(((.((((((...)))))).)))...))))))..)))))))))))).)))))).))..))((((.....)))). (-48.36 = -48.12 +  -0.24)

alignment

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secondary structure

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dotplot

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Window 8

Location 21,123,013 – 21,123,133
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 93.67
Mean single sequence MFE -56.58
Consensus MFE -49.68
Energy contribution -50.80
Covariance contribution 1.12
Combinations/Pair 1.08
Mean z-score -1.38
Structure conservation index 0.88
SVM decision value 0.68
SVM RNA-class probability 0.821329
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21123013 120 + 23771897
UCGGCGCUGUAGCUGCGCAGCGGUUCCAAAUAGCUCGGUGGCAACACGGUGCGAUUUGGAGCGGGCGUGGAGGAUCUGCCUGGUGGCGCAUAGUGGGGCGUUGGGCCCGCAAAGGCACCG
.(((.(((...(((((((.((.(((((((((.((.(.(((....))).).)).)))))))))(((((.(......)))))).)).))))).....((((.....))))))...))).))) ( -56.00)
>DroSec_CAF1 173726 120 + 1
UCGGCGCUGUAGCUGCGCAGCGGUUCCAGAUAGCUGGGUGGCAACACGGUGCGAUUUGGCGCUGGCGUCGAGGAUCUGCCAGGUGGCGCAUAGUGCGGCGUUGGGCCCGCAAAGCCACCG
((((((((((.((..(.((((...........)))).)..)).)))((((((......)))))))))))))((.....)).((((((......(((((.(.....))))))..)))))). ( -57.90)
>DroSim_CAF1 85418 120 + 1
UCGGCGCUGUAGCUGCGCAUCGGUUCCAGAUAGCUGGGUGGCAACACGGUGCGAUUUGGCGCUGGCGUCGAGGAUCUGCCAGGUGGCGCAUAGUGCGGCGUUGGGCCCGCAAAGCCACCG
((((((((...(((.((((((....((((....))))(((....)))))))))....)))...))))))))((.....)).((((((......(((((.(.....))))))..)))))). ( -57.70)
>DroEre_CAF1 96144 120 + 1
UCGGCGCUGUAGCUGCGCAGCGGUUCCAGAUAGCUGGGUGGCAGCACAGUGCGAUUUGGAGCUGGCGUGGAGGACCUACCAGGUGGCGCAUAGUGGGGCGUUGGGCCCGCAAAGCCGCCG
((.(((((...(((....)))((((((((((.((...(((....)))...)).))))))))))))))).))((.....)).((((((.....(((((.(....).)))))...)))))). ( -54.50)
>DroYak_CAF1 67101 120 + 1
UCGGCGCUGUAGCUGCGCAGCGGUUCCAGGUAGCUGGGUGGCAACACGGUGCGAUUUGGAGCUGGCGUGGAGGAUCUACCAGGUGGCGCGUAGUGGGGCGUUGGGCCCGCAAAGCCACCA
((.(((((...(((....)))((((((((((.((...(((....)))...)).))))))))))))))).))((.....)).((((((.....(((((.(....).)))))...)))))). ( -56.80)
>consensus
UCGGCGCUGUAGCUGCGCAGCGGUUCCAGAUAGCUGGGUGGCAACACGGUGCGAUUUGGAGCUGGCGUGGAGGAUCUGCCAGGUGGCGCAUAGUGGGGCGUUGGGCCCGCAAAGCCACCG
..((((...(..((((((..(((((((((((.((...(((....)))...)).)))))))))))))))))..)...)))).((((((.....(((.(((.....))))))...)))))). (-49.68 = -50.80 +   1.12)

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 13:03:40 2006