Locus 7357

Sequence ID 3L_DroMel_CAF1
Location 19,725,313 – 19,725,456
Length 143
Max. P 0.999962
window11951 window11952 window11953 window11954

overview

Window 1

Location 19,725,313 – 19,725,416
Length 103
Sequences 3
Columns 103
Reading direction forward
Mean pairwise identity 99.35
Mean single sequence MFE -35.40
Consensus MFE -34.37
Energy contribution -34.70
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -1.54
Structure conservation index 0.97
SVM decision value 0.15
SVM RNA-class probability 0.609528
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19725313 103 + 23771897
CUCGGAGAUGAUAUGAGAACAGUAAUUGACGCUGCCGCUGCGGAUCAACAUGUGUGUGCUGUAAGAGAGCGGGAGAGCGAAAUCAGUUCUCUCGUUCUCCCGC
..(((.............((((((..(((..((((....)))).)))((....)).))))))..((((((((((((((.......))))))))))))))))). ( -36.20)
>DroSec_CAF1 34647 103 + 1
CUCGGAGAUGAUAUGAGAACAGUAAUUGACGCUGCCGCUGCGGAUCAACAUGUGUGUGCUGUAAGAGAGCGGUAGAGCGAAAUCAGUUCUCUCGUUCUCCCGC
...((((((((...((((((.(...(((...((((((((((((....(((....))).)))).....))))))))..)))...).))))))))).)))))... ( -33.80)
>DroSim_CAF1 36799 103 + 1
CUCGGAGAUGAUAUGAGAACAGUAAUUGACGCUGCCGCUGCGGAUCAACAUGUGUGUGCUGUAAGAGAGCGGGAGAGCGAAAUCAGUUCUCUCGUUCUCCCGC
..(((.............((((((..(((..((((....)))).)))((....)).))))))..((((((((((((((.......))))))))))))))))). ( -36.20)
>consensus
CUCGGAGAUGAUAUGAGAACAGUAAUUGACGCUGCCGCUGCGGAUCAACAUGUGUGUGCUGUAAGAGAGCGGGAGAGCGAAAUCAGUUCUCUCGUUCUCCCGC
..(((.............((((((..(((..((((....)))).)))((....)).))))))..((((((((((((((.......))))))))))))))))). (-34.37 = -34.70 +   0.33)

alignment

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secondary structure

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dotplot

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Window 2

Location 19,725,313 – 19,725,416
Length 103
Sequences 3
Columns 103
Reading direction reverse
Mean pairwise identity 99.35
Mean single sequence MFE -30.50
Consensus MFE -30.50
Energy contribution -30.50
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.51
Structure conservation index 1.00
SVM decision value 0.27
SVM RNA-class probability 0.662741
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19725313 103 - 23771897
GCGGGAGAACGAGAGAACUGAUUUCGCUCUCCCGCUCUCUUACAGCACACACAUGUUGAUCCGCAGCGGCAGCGUCAAUUACUGUUCUCAUAUCAUCUCCGAG
...(((((....(((((((((((.((((...(((((......(((((......)))))......))))).))))..)))))..))))))......)))))... ( -30.50)
>DroSec_CAF1 34647 103 - 1
GCGGGAGAACGAGAGAACUGAUUUCGCUCUACCGCUCUCUUACAGCACACACAUGUUGAUCCGCAGCGGCAGCGUCAAUUACUGUUCUCAUAUCAUCUCCGAG
...(((((....(((((((((((.((((...(((((......(((((......)))))......))))).))))..)))))..))))))......)))))... ( -30.50)
>DroSim_CAF1 36799 103 - 1
GCGGGAGAACGAGAGAACUGAUUUCGCUCUCCCGCUCUCUUACAGCACACACAUGUUGAUCCGCAGCGGCAGCGUCAAUUACUGUUCUCAUAUCAUCUCCGAG
...(((((....(((((((((((.((((...(((((......(((((......)))))......))))).))))..)))))..))))))......)))))... ( -30.50)
>consensus
GCGGGAGAACGAGAGAACUGAUUUCGCUCUCCCGCUCUCUUACAGCACACACAUGUUGAUCCGCAGCGGCAGCGUCAAUUACUGUUCUCAUAUCAUCUCCGAG
...(((((....(((((((((((.((((...(((((......(((((......)))))......))))).))))..)))))..))))))......)))))... (-30.50 = -30.50 +   0.00)

alignment

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secondary structure

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dotplot

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Window 3

Location 19,725,353 – 19,725,456
Length 103
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 90.35
Mean single sequence MFE -41.34
Consensus MFE -37.63
Energy contribution -37.71
Covariance contribution 0.08
Combinations/Pair 1.06
Mean z-score -3.36
Structure conservation index 0.91
SVM decision value 4.93
SVM RNA-class probability 0.999962
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19725353 103 + 23771897
CGGAUCAACAUGUGUGUGCUGUAAGAGAGCGGGAGAGCGAAAUCAGUUCU-----------------CUCGUUCUCCCGCUCGCACACAUUCAUGCAAUGGGCAUCUGCAGCGAAUUCUA
.(((((.(((....)))((((((.((((((((((((((((..........-----------------.))))))))))))))((...((((.....)))).)).))))))))).)))).. ( -41.70)
>DroSec_CAF1 34687 103 + 1
CGGAUCAACAUGUGUGUGCUGUAAGAGAGCGGUAGAGCGAAAUCAGUUCU-----------------CUCGUUCUCCCGCUCGCACACAUUCAUGCAAUGGGCAUCUGCAGCGAAUUCUA
.(((......((((((((..((..(((((((..(((((.......)))))-----------------..)))))))..)).))))))))(((.((((.........))))..))).))). ( -35.00)
>DroSim_CAF1 36839 103 + 1
CGGAUCAACAUGUGUGUGCUGUAAGAGAGCGGGAGAGCGAAAUCAGUUCU-----------------CUCGUUCUCCCGCUCGCACACAUUCAUGCAAUGGGCAUCUGCAGCGAAUUCUA
.(((((.(((....)))((((((.((((((((((((((((..........-----------------.))))))))))))))((...((((.....)))).)).))))))))).)))).. ( -41.70)
>DroEre_CAF1 37418 120 + 1
CGGAUCAACAUGUGUGUGCUGUAAGAGAGCGGGAGAACGAAAUCAGCGGGAGAACGAGAGAACUGAUUUCGUUCUCCCGCUCGCACACAUUCAUGCAAUGGGCAUCUGCAGCGAAUUCUA
.(((((.(((....)))((((((.(((((((((((((((((((((((....)..(....)..))))))))))))))))))))((...((((.....)))).)).))))))))).)))).. ( -53.20)
>DroYak_CAF1 35529 102 + 1
CGGAUCAACAUGUGUGUGCUGUAAGAGAGCGGGAGAGCGAAAUCAGUUCG-----------------CUCGUUCUC-CGUUCGCACACAUUCAUGCAAUGGGCAUCUGCAGCGAAUUCUA
.(((((..(((((((((((.....(((((((((.((((.......)))).-----------------)))))))))-.....)))))))..))))......((....))...).)))).. ( -35.10)
>consensus
CGGAUCAACAUGUGUGUGCUGUAAGAGAGCGGGAGAGCGAAAUCAGUUCU_________________CUCGUUCUCCCGCUCGCACACAUUCAUGCAAUGGGCAUCUGCAGCGAAUUCUA
.(((((.(((....)))((((((.((((((((((((((((............................))))))))))))))((...((((.....)))).)).))))))))).)))).. (-37.63 = -37.71 +   0.08)

alignment

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secondary structure

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dotplot

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Window 4

Location 19,725,353 – 19,725,456
Length 103
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 90.35
Mean single sequence MFE -38.94
Consensus MFE -31.80
Energy contribution -32.24
Covariance contribution 0.44
Combinations/Pair 1.03
Mean z-score -3.07
Structure conservation index 0.82
SVM decision value 3.10
SVM RNA-class probability 0.998439
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19725353 103 - 23771897
UAGAAUUCGCUGCAGAUGCCCAUUGCAUGAAUGUGUGCGAGCGGGAGAACGAG-----------------AGAACUGAUUUCGCUCUCCCGCUCUCUUACAGCACACACAUGUUGAUCCG
....(((((.(((((.......))))))))))((((((((((((((((.((((-----------------(.......))))).)))))))))).......))))))............. ( -39.71)
>DroSec_CAF1 34687 103 - 1
UAGAAUUCGCUGCAGAUGCCCAUUGCAUGAAUGUGUGCGAGCGGGAGAACGAG-----------------AGAACUGAUUUCGCUCUACCGCUCUCUUACAGCACACACAUGUUGAUCCG
....(((((.(((((.......))))))))))((((((((((((.(((.((((-----------------(.......))))).))).)))))).......))))))............. ( -32.91)
>DroSim_CAF1 36839 103 - 1
UAGAAUUCGCUGCAGAUGCCCAUUGCAUGAAUGUGUGCGAGCGGGAGAACGAG-----------------AGAACUGAUUUCGCUCUCCCGCUCUCUUACAGCACACACAUGUUGAUCCG
....(((((.(((((.......))))))))))((((((((((((((((.((((-----------------(.......))))).)))))))))).......))))))............. ( -39.71)
>DroEre_CAF1 37418 120 - 1
UAGAAUUCGCUGCAGAUGCCCAUUGCAUGAAUGUGUGCGAGCGGGAGAACGAAAUCAGUUCUCUCGUUCUCCCGCUGAUUUCGUUCUCCCGCUCUCUUACAGCACACACAUGUUGAUCCG
....(((((.(((((.......))))))))))(((((((((((((((((((((((((((..............))))))))))))))))))))).......))))))............. ( -52.05)
>DroYak_CAF1 35529 102 - 1
UAGAAUUCGCUGCAGAUGCCCAUUGCAUGAAUGUGUGCGAACG-GAGAACGAG-----------------CGAACUGAUUUCGCUCUCCCGCUCUCUUACAGCACACACAUGUUGAUCCG
....(((((.(((((.......))))))))))((((((.((.(-(((...(((-----------------((((.....))))))).....)))).))...))))))............. ( -30.30)
>consensus
UAGAAUUCGCUGCAGAUGCCCAUUGCAUGAAUGUGUGCGAGCGGGAGAACGAG_________________AGAACUGAUUUCGCUCUCCCGCUCUCUUACAGCACACACAUGUUGAUCCG
....(((((.(((((.......))))))))))((((((((((((((((.((((..........................)))).)))))))))).......))))))............. (-31.80 = -32.24 +   0.44)

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 12:44:56 2006