Locus 3778

Sequence ID 2L_DroMel_CAF1
Location 11,035,384 – 11,035,523
Length 139
Max. P 0.926465
window5953 window5954

overview

Window 3

Location 11,035,384 – 11,035,491
Length 107
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 84.37
Mean single sequence MFE -27.27
Consensus MFE -21.46
Energy contribution -21.62
Covariance contribution 0.16
Combinations/Pair 1.21
Mean z-score -1.70
Structure conservation index 0.79
SVM decision value 0.35
SVM RNA-class probability 0.701803
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11035384 107 + 22407834
UAAUGAAUCAU-UCGAACAGAUCACAUGGGUCACGGCUAUAUCACGAAUCAGUGAUGCAAUGAAUCAAUGAUUCAAUAAAGCCAUGUCUCUCCGGAGUGU------------ACCCCCGA
...........-...............(((((((((((.(((...((((((.((((.......)))).)))))).))).))))...(((....)))))).------------)))).... ( -25.70)
>DroSec_CAF1 23855 119 + 1
UAAUGAAUCAUUUCGCACAGAUCACAUGGGUCACGGUUAUAUCACGAAUCAGUGAUGCAAUGAAUCAAUGAUUCAAUA-AGCCAUGUCUGUCCGUAGUACCCCCUACUUGUGACUCCCGA
....(((....))).............(((((((((((.((((((......))))))...((((((...))))))...-))))..........((((......))))..))))))).... ( -27.60)
>DroSim_CAF1 23884 119 + 1
UAAUGAAUCAUUUCGAACAGAUCACAUGGGUCACGGUUAUAUCACGAAUCAGUGAUGCAAUGAAUCAAUGAUUCAAUA-AGCCAUGUCUGUCCGUAGUACCCCCUACUUGUGACUCCCGA
...((((....))))............(((((((((((.((((((......))))))...((((((...))))))...-))))..........((((......))))..))))))).... ( -27.90)
>DroEre_CAF1 25544 115 + 1
UAAUGAAUCACUUCAAACUAAUCACAUGGGUCACGGCUAUAUCACGAACCAGUGAUGCAAUAAAUCAAUGAUUCAAUA-AGCCCAGUCU----GGAGUACCCCCUAGUUGUGGCUCCCAA
...(((((((..........(((((.(((....((.........))..))))))))............)))))))...-(((((((.((----((........))))))).))))..... ( -25.65)
>DroYak_CAF1 24729 114 + 1
-AAUGAAUCAUUUUCACCUGAUUACAUGGGUCACGGUUAUAUUACGAAUCAGUGAUGCAAUAAAUCAAUGAUUCAAUA-AGCCAUGUCU----GGAGUACCACCUAGUUGUGACUCCCAA
-.((((((((........))))).)))(((((((((((.((((..((((((.((((.......)))).))))))))))-))))....((----((........))))..))))))).... ( -29.50)
>consensus
UAAUGAAUCAUUUCGAACAGAUCACAUGGGUCACGGUUAUAUCACGAAUCAGUGAUGCAAUGAAUCAAUGAUUCAAUA_AGCCAUGUCU_UCCGGAGUACCCCCUACUUGUGACUCCCGA
...........................(((((((((((.(((...((((((.((((.......)))).)))))).))).))))..(((((....))).)).........))))))).... (-21.46 = -21.62 +   0.16)

alignment

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secondary structure

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dotplot

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Window 4

Location 11,035,423 – 11,035,523
Length 100
Sequences 5
Columns 119
Reading direction forward
Mean pairwise identity 78.44
Mean single sequence MFE -22.09
Consensus MFE -12.52
Energy contribution -14.12
Covariance contribution 1.60
Combinations/Pair 1.00
Mean z-score -2.20
Structure conservation index 0.57
SVM decision value 1.18
SVM RNA-class probability 0.926465
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11035423 100 + 22407834
AUCACGAAUCAGUGAUGCAAUGAAUCAAUGAUUCAAUAAAGCCAUGUCUCUCCGGAGUGU------------ACCCCCGAA---CUU---CCACUUC-CACUUCCACUCACCUGGCAAA
.....((((((.((((.......)))).))))))......((((.((......((((((.------------.........---...---.......-)))))).....)).))))... ( -21.25)
>DroSec_CAF1 23895 111 + 1
AUCACGAAUCAGUGAUGCAAUGAAUCAAUGAUUCAAUA-AGCCAUGUCUGUCCGUAGUACCCCCUACUUGUGACUCCCGAA---CUU---CCACUUC-CACUUCGACUCACCUGGCAAA
.....((((((.((((.......)))).))))))....-.((((.((..(((.((((......))))..(((.........---...---.)))...-......)))..)).))))... ( -24.92)
>DroSim_CAF1 23924 105 + 1
AUCACGAAUCAGUGAUGCAAUGAAUCAAUGAUUCAAUA-AGCCAUGUCUGUCCGUAGUACCCCCUACUUGUGACUCCCGAA---CUU---CCACUUC-CA------CUCACCUGGCAAA
.....((((((.((((.......)))).))))))....-.((((.((..((..((((......))))..(((.........---...---.)))...-.)------)..)).))))... ( -21.32)
>DroEre_CAF1 25584 102 + 1
AUCACGAACCAGUGAUGCAAUAAAUCAAUGAUUCAAUA-AGCCCAGUCU----GGAGUACCCCCUAGUUGUGGCUCCCAAA---CCC---------CAAACUUCCACUCACCUGGCAAA
.....(((.((.((((.......)))).)).)))....-(((((((.((----((........))))))).))))......---...---------.......(((......))).... ( -17.10)
>DroYak_CAF1 24768 114 + 1
AUUACGAAUCAGUGAUGCAAUAAAUCAAUGAUUCAAUA-AGCCAUGUCU----GGAGUACCACCUAGUUGUGACUCCCAAGACACCCCUCGCCCUUCACCCUUCCACUCACCUGGCAAA
.....((((((.((((.......)))).))))))....-.(((((((((----(((((..(((......))))))))..)))))............................))))... ( -25.88)
>consensus
AUCACGAAUCAGUGAUGCAAUGAAUCAAUGAUUCAAUA_AGCCAUGUCU_UCCGGAGUACCCCCUACUUGUGACUCCCGAA___CUU___CCACUUC_CACUUCCACUCACCUGGCAAA
.....((((((.((((.......)))).))))))......((((.((......(((((.........................................))))).....)).))))... (-12.52 = -14.12 +   1.60)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:00:57 2006