Locus 2219

Sequence ID 2R_DroMel_CAF1
Location 8,172,219 – 8,172,370
Length 151
Max. P 0.954042
window3655 window3656 window3657 window3658

overview

Window 5

Location 8,172,219 – 8,172,330
Length 111
Sequences 5
Columns 111
Reading direction forward
Mean pairwise identity 94.77
Mean single sequence MFE -24.84
Consensus MFE -21.14
Energy contribution -20.78
Covariance contribution -0.36
Combinations/Pair 1.10
Mean z-score -1.80
Structure conservation index 0.85
SVM decision value 1.44
SVM RNA-class probability 0.954042
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8172219 111 + 20766785
UUUGCAUAAACGAAUUUCUAUUGAAUCUCAUAACGGGUUAGUGACCUAUGACAAACAAUAGAAUUGUUUGUUUAACAAAGAAUUUUCUGCAUAGAAGAGUGAGAGAUCACA
((((..(((((((((((((((((....((((...(((((...)))))))))....))))))))..))))))))).))))...((((((....))))))((((....)))). ( -26.30)
>DroSec_CAF1 3094 111 + 1
UUUGCAUAAACGAAUUUCUUUUGAAUCUCAUAACGGGUUAGUGACCUAUGACAAACAAUAGAAUUGUUUGUUUAACAAAGAGUUUUCUGCAUACAAGAGUGAGAGAUCACA
..((((.((((((..(((....)))..)).....(((((...)))))..((((((((((...)))))))))).........))))..)))).......((((....)))). ( -22.80)
>DroSim_CAF1 3121 111 + 1
UUUGCAUAAACGAAUUUCUUUUGAAUCUCAUAACGGGUUAGUGACCUAUGACAAACAAUAGAAUUGUUUGUUUAACAAAGAAUUUUCUGCAUAGAAGAGUGAGAGAUCACA
((((..(((((((((((((.(((....((((...(((((...)))))))))....))).))))..))))))))).))))...((((((....))))))((((....)))). ( -22.40)
>DroEre_CAF1 3113 111 + 1
UUUGCAUAAACGAACUUCUUUUGAUUCUCAUUACGGGUUAGUGACCUAUGACAAACAAUAGAAUUGUUUGUUUAACAAAGAGUUUUCUGCAUAGAAAAGUGAGAGAUCGCA
..(((.(((((((((((((.(((.((.((((...(((((...))))))))).)).))).))))..))))))))).......(.(((((.(((......)))))))).)))) ( -24.60)
>DroYak_CAF1 3139 111 + 1
UUUGCAUAAACGAACUUCUUUGGAAUCUCAUAACGGGUUAGUGACCUAUGACAAACAAUAGAAUUGUUUGUUCAACAAAGGGAUUUCUGCAUAGAAAUGUGAGAGAUCACA
................((((((............(((((...))))).(((((((((((...)))))))).))).))))))(((((((.((((....)))))))))))... ( -28.10)
>consensus
UUUGCAUAAACGAAUUUCUUUUGAAUCUCAUAACGGGUUAGUGACCUAUGACAAACAAUAGAAUUGUUUGUUUAACAAAGAGUUUUCUGCAUAGAAGAGUGAGAGAUCACA
((((..(((((((((((((.(((....((((...(((((...)))))))))....))).))))..))))))))).))))...((((((....))))))((((....)))). (-21.14 = -20.78 +  -0.36)

alignment

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secondary structure

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Window 6

Location 8,172,219 – 8,172,330
Length 111
Sequences 5
Columns 111
Reading direction reverse
Mean pairwise identity 94.77
Mean single sequence MFE -21.06
Consensus MFE -18.28
Energy contribution -18.68
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -1.49
Structure conservation index 0.87
SVM decision value 0.85
SVM RNA-class probability 0.866130
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8172219 111 - 20766785
UGUGAUCUCUCACUCUUCUAUGCAGAAAAUUCUUUGUUAAACAAACAAUUCUAUUGUUUGUCAUAGGUCACUAACCCGUUAUGAGAUUCAAUAGAAAUUCGUUUAUGCAAA
.((((....)))).......((((.(((.....(((((.....)))))((((((((..(.((((((((.....)))...))))).)..)))))))).....))).)))).. ( -23.20)
>DroSec_CAF1 3094 111 - 1
UGUGAUCUCUCACUCUUGUAUGCAGAAAACUCUUUGUUAAACAAACAAUUCUAUUGUUUGUCAUAGGUCACUAACCCGUUAUGAGAUUCAAAAGAAAUUCGUUUAUGCAAA
.((((....)))).......((((..((((...(((((.....)))))((((.(((..(.((((((((.....)))...))))).)..))).))))....)))).)))).. ( -21.50)
>DroSim_CAF1 3121 111 - 1
UGUGAUCUCUCACUCUUCUAUGCAGAAAAUUCUUUGUUAAACAAACAAUUCUAUUGUUUGUCAUAGGUCACUAACCCGUUAUGAGAUUCAAAAGAAAUUCGUUUAUGCAAA
.(((((((.............(((((......)))))...(((((((((...)))))))))...)))))))......((.(((((.(((....))).)))))....))... ( -20.10)
>DroEre_CAF1 3113 111 - 1
UGCGAUCUCUCACUUUUCUAUGCAGAAAACUCUUUGUUAAACAAACAAUUCUAUUGUUUGUCAUAGGUCACUAACCCGUAAUGAGAAUCAAAAGAAGUUCGUUUAUGCAAA
((((((((.....((((((....))))))...........(((((((((...)))))))))...)))))..........((((((..((....))..))))))...))).. ( -18.90)
>DroYak_CAF1 3139 111 - 1
UGUGAUCUCUCACAUUUCUAUGCAGAAAUCCCUUUGUUGAACAAACAAUUCUAUUGUUUGUCAUAGGUCACUAACCCGUUAUGAGAUUCCAAAGAAGUUCGUUUAUGCAAA
(((((....)))))......((((.((((..((((.(((..((((((((...))))))))((((((((.....)))...))))).....))).))))...)))).)))).. ( -21.60)
>consensus
UGUGAUCUCUCACUCUUCUAUGCAGAAAACUCUUUGUUAAACAAACAAUUCUAUUGUUUGUCAUAGGUCACUAACCCGUUAUGAGAUUCAAAAGAAAUUCGUUUAUGCAAA
.(((((((.............(((((......)))))...(((((((((...)))))))))...)))))))......((.(((((.(((....))).)))))....))... (-18.28 = -18.68 +   0.40)

alignment

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secondary structure

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Window 7

Location 8,172,259 – 8,172,370
Length 111
Sequences 5
Columns 111
Reading direction forward
Mean pairwise identity 92.16
Mean single sequence MFE -24.32
Consensus MFE -19.36
Energy contribution -18.68
Covariance contribution -0.68
Combinations/Pair 1.14
Mean z-score -1.85
Structure conservation index 0.80
SVM decision value 0.90
SVM RNA-class probability 0.877227
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8172259 111 + 20766785
GUGACCUAUGACAAACAAUAGAAUUGUUUGUUUAACAAAGAAUUUUCUGCAUAGAAGAGUGAGAGAUCACAUUGUAUCCAACAUUUUAGGGCUUAAAAUAAUAGACAACAU
....((((.((((((((((...))))))))))..((((....((((((....))))))((((....)))).))))...........))))..................... ( -19.80)
>DroSec_CAF1 3134 111 + 1
GUGACCUAUGACAAACAAUAGAAUUGUUUGUUUAACAAAGAGUUUUCUGCAUACAAGAGUGAGAGAUCACAUUGUAUUCAACAUUUUAGGGCUUAUUAUAAUAGGCCACAU
(((.((((.((((((((((...))))))))))...............((.((((((..((((....)))).)))))).))......))))((((((....))))))))).. ( -27.70)
>DroSim_CAF1 3161 111 + 1
GUGACCUAUGACAAACAAUAGAAUUGUUUGUUUAACAAAGAAUUUUCUGCAUAGAAGAGUGAGAGAUCACAUUGUAUCCAACAUUUUAGGGCUUAAAAUAAUAGGCGACAU
....((((.((((((((((...))))))))))..((((....((((((....))))))((((....)))).))))...........))))(((((......)))))..... ( -23.80)
>DroEre_CAF1 3153 111 + 1
GUGACCUAUGACAAACAAUAGAAUUGUUUGUUUAACAAAGAGUUUUCUGCAUAGAAAAGUGAGAGAUCGCAUUGUAUCCAACAUUUUAGGGCUUAAAAUAACAGACCACAU
(((..((..((((((((((...)))))))))).........(((((..((.(((((..((((....))))..(((.....))))))))..))..)))))...))..))).. ( -19.60)
>DroYak_CAF1 3179 111 + 1
GUGACCUAUGACAAACAAUAGAAUUGUUUGUUCAACAAAGGGAUUUCUGCAUAGAAAUGUGAGAGAUCACAUUGUGGCCAACAUUUUGGGGCUUCAAAUAACAGAACACAU
(((.(((.(((((((((((...)))))))))....)).)))(((((((.((((....)))))))))))...(((.((((..........)))).))).........))).. ( -30.70)
>consensus
GUGACCUAUGACAAACAAUAGAAUUGUUUGUUUAACAAAGAGUUUUCUGCAUAGAAGAGUGAGAGAUCACAUUGUAUCCAACAUUUUAGGGCUUAAAAUAAUAGACCACAU
....((((.((((((((((...))))))))))..((((....((((((....))))))((((....)))).))))...........))))..................... (-19.36 = -18.68 +  -0.68)

alignment

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secondary structure

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dotplot

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Window 8

Location 8,172,259 – 8,172,370
Length 111
Sequences 5
Columns 111
Reading direction reverse
Mean pairwise identity 92.16
Mean single sequence MFE -22.96
Consensus MFE -17.02
Energy contribution -17.34
Covariance contribution 0.32
Combinations/Pair 1.07
Mean z-score -1.97
Structure conservation index 0.74
SVM decision value 0.30
SVM RNA-class probability 0.672497
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8172259 111 - 20766785
AUGUUGUCUAUUAUUUUAAGCCCUAAAAUGUUGGAUACAAUGUGAUCUCUCACUCUUCUAUGCAGAAAAUUCUUUGUUAAACAAACAAUUCUAUUGUUUGUCAUAGGUCAC
.(((.(((((.(((((((.....))))))).))))))))..(((((((.............(((((......)))))...(((((((((...)))))))))...))))))) ( -22.70)
>DroSec_CAF1 3134 111 - 1
AUGUGGCCUAUUAUAAUAAGCCCUAAAAUGUUGAAUACAAUGUGAUCUCUCACUCUUGUAUGCAGAAAACUCUUUGUUAAACAAACAAUUCUAUUGUUUGUCAUAGGUCAC
..(((((((((..(((((((........(((...((((((.((((....))))..)))))))))........))))))).(((((((((...))))))))).))))))))) ( -27.79)
>DroSim_CAF1 3161 111 - 1
AUGUCGCCUAUUAUUUUAAGCCCUAAAAUGUUGGAUACAAUGUGAUCUCUCACUCUUCUAUGCAGAAAAUUCUUUGUUAAACAAACAAUUCUAUUGUUUGUCAUAGGUCAC
.(((..((...(((((((.....)))))))..))..)))..(((((((.............(((((......)))))...(((((((((...)))))))))...))))))) ( -20.60)
>DroEre_CAF1 3153 111 - 1
AUGUGGUCUGUUAUUUUAAGCCCUAAAAUGUUGGAUACAAUGCGAUCUCUCACUUUUCUAUGCAGAAAACUCUUUGUUAAACAAACAAUUCUAUUGUUUGUCAUAGGUCAC
.((((.(((..(((((((.....)))))))..)))))))....(((((.....((((((....))))))...........(((((((((...)))))))))...))))).. ( -19.80)
>DroYak_CAF1 3179 111 - 1
AUGUGUUCUGUUAUUUGAAGCCCCAAAAUGUUGGCCACAAUGUGAUCUCUCACAUUUCUAUGCAGAAAUCCCUUUGUUGAACAAACAAUUCUAUUGUUUGUCAUAGGUCAC
..(((((((((.....((((((..........)))....((((((....)))))))))...))))))...(((....(((.((((((((...))))))))))).))).))) ( -23.90)
>consensus
AUGUGGUCUAUUAUUUUAAGCCCUAAAAUGUUGGAUACAAUGUGAUCUCUCACUCUUCUAUGCAGAAAACUCUUUGUUAAACAAACAAUUCUAUUGUUUGUCAUAGGUCAC
..(((((((((........((........((((....))))((((....))))........)).................(((((((((...))))))))).))))))))) (-17.02 = -17.34 +   0.32)

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 10:24:10 2006