Locus 2927

Sequence ID 2L_DroMel_CAF1
Location 8,418,705 – 8,418,816
Length 111
Max. P 0.935505
window4643 window4644

overview

Window 3

Location 8,418,705 – 8,418,816
Length 111
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 94.60
Mean single sequence MFE -27.60
Consensus MFE -23.59
Energy contribution -23.99
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -1.70
Structure conservation index 0.85
SVM decision value 1.25
SVM RNA-class probability 0.935505
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8418705 111 + 22407834
AGGCAUUUGGCGUGCCGAAUGGGCAUUGU-AUUAAUGCCAAAUCAACAGAAAUGUGGAAAAUAGAAAUAUAUGUGUAG--------UCCGCACUAAAAAUCAAUCGCAGUAGGCCCCAGA
.((.....(((.((((((.(((((((((.-..))))))).............((((((..(((.(......).)))..--------))))))........)).)))..))).)))))... ( -27.10)
>DroSec_CAF1 16734 120 + 1
AGGCAUUUGGCGUGCCGAAUGGGCAUUGUUAUUAAUGCCAAAUCAACAGAAAUGUGGAAAAUAGAAAAAUAUGUGUAGUCAGUCAGUCCGCACUAAAAAUCAAUCGCAGUAGGCCCCAGA
.((.....(((.((((((.(((((((((....)))))))...((.(((....))).))..............(((..(.(.....).)..))).......)).)))..))).)))))... ( -27.90)
>DroSim_CAF1 16572 112 + 1
AGGCAUUUGGCGUGCCGAAUGGGCAUUGUUAUUAAUGCCAAAUCAACAGAAAUGUGGAAAAUAGAAAAAUAUGUGUAG--------UCCGCACUAAAAAUCAAUCGCAGUAGGCCCCAGA
.((.....(((.((((((.(((((((((....))))))).............((((((..(((.(......).)))..--------))))))........)).)))..))).)))))... ( -28.80)
>DroEre_CAF1 17020 110 + 1
AGGCACUUGGCGUGCCGAAUAGGCAUUGU-AUAAAUGCCAAAUCAACAAAAAUGUGGAAAAUAGAAAAAUAUGUGUAG--------UCCGCACUAA-AAUCAAUCGCAGUAGGCCCCAGA
.((.....(((.((((((...((((((..-...)))))).............((((((..(((.(......).)))..--------))))))....-......)))..))).)))))... ( -27.10)
>DroYak_CAF1 16893 111 + 1
AGGCAUUUGGCGUGCCGAAUGGGCAUUGU-AUUAAUGCCAAAUCAACAGAAAUGUGGAAAAUAGAAAAAUAUGUGUAG--------UCCGCACUAAAAAUCAAUCGCAGUAGGCCCCAGA
.((.....(((.((((((.(((((((((.-..))))))).............((((((..(((.(......).)))..--------))))))........)).)))..))).)))))... ( -27.10)
>consensus
AGGCAUUUGGCGUGCCGAAUGGGCAUUGU_AUUAAUGCCAAAUCAACAGAAAUGUGGAAAAUAGAAAAAUAUGUGUAG________UCCGCACUAAAAAUCAAUCGCAGUAGGCCCCAGA
.((.....(((.((((((.(((((((((....))))))).............((((((..(((......)))..............))))))........)).)))..))).)))))... (-23.59 = -23.99 +   0.40)

alignment

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secondary structure

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dotplot

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Window 4

Location 8,418,705 – 8,418,816
Length 111
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 94.60
Mean single sequence MFE -25.00
Consensus MFE -24.25
Energy contribution -24.25
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.20
Structure conservation index 0.97
SVM decision value 0.77
SVM RNA-class probability 0.847485
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8418705 111 - 22407834
UCUGGGGCCUACUGCGAUUGAUUUUUAGUGCGGA--------CUACACAUAUAUUUCUAUUUUCCACAUUUCUGUUGAUUUGGCAUUAAU-ACAAUGCCCAUUCGGCACGCCAAAUGCCU
....((((.....(((..........((((.(((--------....................))).))))..((((((...((((((...-..))))))...))))))))).....)))) ( -24.45)
>DroSec_CAF1 16734 120 - 1
UCUGGGGCCUACUGCGAUUGAUUUUUAGUGCGGACUGACUGACUACACAUAUUUUUCUAUUUUCCACAUUUCUGUUGAUUUGGCAUUAAUAACAAUGCCCAUUCGGCACGCCAAAUGCCU
....((((.....(((((((.((.((((((((((..((..((.............))..)).))).((..((....))..))))))))).))))))(((.....))).))).....)))) ( -25.22)
>DroSim_CAF1 16572 112 - 1
UCUGGGGCCUACUGCGAUUGAUUUUUAGUGCGGA--------CUACACAUAUUUUUCUAUUUUCCACAUUUCUGUUGAUUUGGCAUUAAUAACAAUGCCCAUUCGGCACGCCAAAUGCCU
....((((.....(((((((.((.((((((((((--------....................))).((..((....))..))))))))).))))))(((.....))).))).....)))) ( -24.75)
>DroEre_CAF1 17020 110 - 1
UCUGGGGCCUACUGCGAUUGAUU-UUAGUGCGGA--------CUACACAUAUUUUUCUAUUUUCCACAUUUUUGUUGAUUUGGCAUUUAU-ACAAUGCCUAUUCGGCACGCCAAGUGCCU
....((((((...(((.......-..((((.(((--------....................))).))))..((((((...((((((...-..))))))...)))))))))..)).)))) ( -26.15)
>DroYak_CAF1 16893 111 - 1
UCUGGGGCCUACUGCGAUUGAUUUUUAGUGCGGA--------CUACACAUAUUUUUCUAUUUUCCACAUUUCUGUUGAUUUGGCAUUAAU-ACAAUGCCCAUUCGGCACGCCAAAUGCCU
....((((.....(((..........((((.(((--------....................))).))))..((((((...((((((...-..))))))...))))))))).....)))) ( -24.45)
>consensus
UCUGGGGCCUACUGCGAUUGAUUUUUAGUGCGGA________CUACACAUAUUUUUCUAUUUUCCACAUUUCUGUUGAUUUGGCAUUAAU_ACAAUGCCCAUUCGGCACGCCAAAUGCCU
....((((.....(((..........((((.(((............................))).))))..((((((...((((((......))))))...))))))))).....)))) (-24.25 = -24.25 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:39:42 2006