Locus 981

Sequence ID 3L_DroMel_CAF1
Location 2,926,333 – 2,926,492
Length 159
Max. P 0.999934
window1513 window1514 window1515 window1516

overview

Window 3

Location 2,926,333 – 2,926,430
Length 97
Sequences 3
Columns 113
Reading direction forward
Mean pairwise identity 70.28
Mean single sequence MFE -14.07
Consensus MFE -8.54
Energy contribution -8.98
Covariance contribution 0.45
Combinations/Pair 1.07
Mean z-score -2.34
Structure conservation index 0.61
SVM decision value 3.81
SVM RNA-class probability 0.999634
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2926333 97 + 23771897
ACACACGCGCCGAAUACAGCUACACACUAUUGUACCAUAAAUAUUCGCACAC--UCUCUCUCCCUCCU------UCUGGAGUUCUC--------UCUUUUUCUCUUAGUGUAU
..(((((.((.(((((..(.((((......)))).).....))))))).)..--.........((((.------...)))).....--------.............)))).. ( -14.40)
>DroEre_CAF1 170224 99 + 1
ACACACGCGCCGACUACAGCUACACACUAUUGUACCAUAAGUAUUCGCACACUCUCUCUCUCCCUCCC------UCUGGAGUUCUC--------UCUUUUUCUCUUAGUGUAU
..(((((((...(((...(.((((......)))).)...)))...)))...............((((.------...)))).....--------.............)))).. ( -15.30)
>DroAna_CAF1 149519 102 + 1
ACACACGCGUCAA-UACAAACACAU----AUGUACAA----UUUGCACACAC--UCUCUAUCUCUCUUUUUCUCUUUGGAGUUAUUUCUCCCUUUUUUUUUUUCAUAGUGUAA
..(((((((....-((((.......----.))))...----..)))......--.......................((((......))))................)))).. ( -12.50)
>consensus
ACACACGCGCCGA_UACAGCUACACACUAUUGUACCAUAA_UAUUCGCACAC__UCUCUCUCCCUCCU______UCUGGAGUUCUC________UCUUUUUCUCUUAGUGUAU
..(((((((...........((((......))))...........)))...............((((..........))))..........................)))).. ( -8.54 =  -8.98 +   0.45)

alignment

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secondary structure

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dotplot

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Window 4

Location 2,926,333 – 2,926,430
Length 97
Sequences 3
Columns 113
Reading direction reverse
Mean pairwise identity 70.28
Mean single sequence MFE -23.47
Consensus MFE -13.69
Energy contribution -14.37
Covariance contribution 0.68
Combinations/Pair 1.21
Mean z-score -2.78
Structure conservation index 0.58
SVM decision value 4.65
SVM RNA-class probability 0.999934
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2926333 97 - 23771897
AUACACUAAGAGAAAAAGA--------GAGAACUCCAGA------AGGAGGGAGAGAGA--GUGUGCGAAUAUUUAUGGUACAAUAGUGUGUAGCUGUAUUCGGCGCGUGUGU
((((((.............--------.....((((...------.)))).........--((((.(((((((....(.((((......)))).).))))))))))))))))) ( -25.20)
>DroEre_CAF1 170224 99 - 1
AUACACUAAGAGAAAAAGA--------GAGAACUCCAGA------GGGAGGGAGAGAGAGAGUGUGCGAAUACUUAUGGUACAAUAGUGUGUAGCUGUAGUCGGCGCGUGUGU
((((((((...........--------.....((((...------.)))).........((((((....)))))).........)))))))).((((....))))........ ( -22.90)
>DroAna_CAF1 149519 102 - 1
UUACACUAUGAAAAAAAAAAAGGGAGAAAUAACUCCAAAGAGAAAAAGAGAGAUAGAGA--GUGUGUGCAAA----UUGUACAU----AUGUGUUUGUA-UUGACGCGUGUGU
.(((((................((((......)))).......................--((((((((...----..))))))----))(((((....-..)))))))))). ( -22.30)
>consensus
AUACACUAAGAGAAAAAGA________GAGAACUCCAGA______AGGAGGGAGAGAGA__GUGUGCGAAUA_UUAUGGUACAAUAGUGUGUAGCUGUA_UCGGCGCGUGUGU
.(((((..........................((((..........))))...........((((.(((.(((....(.((((......)))).).))).)))))))))))). (-13.69 = -14.37 +   0.68)

alignment

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secondary structure

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dotplot

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Window 5

Location 2,926,399 – 2,926,492
Length 93
Sequences 4
Columns 93
Reading direction forward
Mean pairwise identity 92.83
Mean single sequence MFE -20.05
Consensus MFE -18.90
Energy contribution -19.15
Covariance contribution 0.25
Combinations/Pair 1.06
Mean z-score -1.42
Structure conservation index 0.94
SVM decision value 0.32
SVM RNA-class probability 0.689237
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2926399 93 + 23771897
UCUGGAGUUCUCUCUUUUUCUCUUAGUGUAUUUUUGGUAUUUUCAAUAAGUUACAGUAAAGUCCUACAGAUUUAGCUUAGUGCAGGGAGAGAU
...((((....))))...((((((..((((((.((((.....))))........(((.(((((.....))))).))).))))))..)))))). ( -18.50)
>DroSec_CAF1 162509 93 + 1
CCUGGAGUUCUCUCUUUUUCUCCUAGUGUAUUUUUGAUAUUUUCAAUUAGUUAGAGUAAAGUCCUACAUAUUUAGCUUAGUGCAGGGAGAGAU
...((((....)))).((((((((..((((((.((((.....))))..((((((((((......)))...))))))).)))))))))))))). ( -20.10)
>DroSim_CAF1 148650 93 + 1
CCUGGAGUUCUCUCUUUUUCUCCUAGUGUAUUUUUGAUAUUUUCAAUAAGUUAGAGUAAAGUCCUACAUAUUUAGCUUAGUGCAGGGAGAGAU
...((((....)))).((((((((..(((((..((((.....))))((((((((((((......)))...)))))))))))))))))))))). ( -22.60)
>DroEre_CAF1 170292 92 + 1
UCUGGAGUUCUCUCUUUUUCUCUUAGUGUAUU-UUGGUGUAUUCAAUAAGUUACAGUAAUUUCAUACAUAUUUAGCUUAGUGCAGGGAGAGAU
........(((((((((........((((((.-(((.((((..........)))).)))....)))))).....((.....))))))))))). ( -19.00)
>consensus
CCUGGAGUUCUCUCUUUUUCUCCUAGUGUAUUUUUGAUAUUUUCAAUAAGUUACAGUAAAGUCCUACAUAUUUAGCUUAGUGCAGGGAGAGAU
...((((....)))).((((((((..(((((..((((.....))))((((((((((((......)))...)))))))))))))))))))))). (-18.90 = -19.15 +   0.25)

alignment

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secondary structure

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dotplot

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Window 6

Location 2,926,399 – 2,926,492
Length 93
Sequences 4
Columns 93
Reading direction reverse
Mean pairwise identity 92.83
Mean single sequence MFE -14.85
Consensus MFE -12.46
Energy contribution -12.71
Covariance contribution 0.25
Combinations/Pair 1.06
Mean z-score -1.57
Structure conservation index 0.84
SVM decision value 0.16
SVM RNA-class probability 0.613531
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2926399 93 - 23771897
AUCUCUCCCUGCACUAAGCUAAAUCUGUAGGACUUUACUGUAACUUAUUGAAAAUACCAAAAAUACACUAAGAGAAAAAGAGAGAACUCCAGA
.((((((((((((............)))))).((((..((((..((.(((.......))).))))))...)))).....))))))........ ( -15.80)
>DroSec_CAF1 162509 93 - 1
AUCUCUCCCUGCACUAAGCUAAAUAUGUAGGACUUUACUCUAACUAAUUGAAAAUAUCAAAAAUACACUAGGAGAAAAAGAGAGAACUCCAGG
.((((((((((((............))))))......((((......((((.....))))..........)))).....))))))........ ( -16.09)
>DroSim_CAF1 148650 93 - 1
AUCUCUCCCUGCACUAAGCUAAAUAUGUAGGACUUUACUCUAACUUAUUGAAAAUAUCAAAAAUACACUAGGAGAAAAAGAGAGAACUCCAGG
.((((((((((((............))))))......((((....((((............)))).....)))).....))))))........ ( -16.10)
>DroEre_CAF1 170292 92 - 1
AUCUCUCCCUGCACUAAGCUAAAUAUGUAUGAAAUUACUGUAACUUAUUGAAUACACCAA-AAUACACUAAGAGAAAAAGAGAGAACUCCAGA
.((((((...((.....))......(((((..(((...........)))..)))))....-..................))))))........ ( -11.40)
>consensus
AUCUCUCCCUGCACUAAGCUAAAUAUGUAGGACUUUACUCUAACUUAUUGAAAAUACCAAAAAUACACUAAGAGAAAAAGAGAGAACUCCAGA
.((((((((((((............))))))............((((.((...............)).)))).......))))))........ (-12.46 = -12.71 +   0.25)

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 09:56:03 2006