Locus 576

Sequence ID 2L_DroMel_CAF1
Location 1,768,780 – 1,768,876
Length 96
Max. P 0.992735
window948 window949

overview

Window 8

Location 1,768,780 – 1,768,876
Length 96
Sequences 6
Columns 113
Reading direction forward
Mean pairwise identity 76.37
Mean single sequence MFE -16.87
Consensus MFE -10.69
Energy contribution -10.80
Covariance contribution 0.11
Combinations/Pair 1.32
Mean z-score -2.44
Structure conservation index 0.63
SVM decision value 2.01
SVM RNA-class probability 0.985589
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1768780 96 + 22407834
---UCCUGGCUACAAAUGAAUGCACAUUAUUCUUUGGAGU--UUUCCACUCCCUUGGUUUUAUUACCCC-UCACAAUCACUUCCUACU---UAGUAGCUUUCUUU--------
---....((((((....(((((.....)))))...(((((--.....)))))...(((......)))..-..................---..))))))......-------- ( -16.00)
>DroSec_CAF1 25767 91 + 1
--------UCUACAAAUGAAUGCACAUUAUUCUUUGGAGU--UUUCCACUCCCUUGGUUUUAUUACCCC-UCACAAUCACUUCCUACU---UAGUAGCUUUCUUU--------
--------.........(((.((((..........(((((--.....)))))...(((......)))..-..................---..)).)).)))...-------- ( -11.60)
>DroSim_CAF1 28091 96 + 1
---UUCUGGCUACAAAUGAAUGCACAUUAUUCUUCGGAGU--UUUCCACUCCCUUGGUUUUAUUACCCC-UCACGCACACUUCCUACU---UAGUAGCUUUCUUU--------
---....((((((....(((((.....)))))...(((((--.....)))))...(((......)))..-..................---..))))))......-------- ( -16.30)
>DroEre_CAF1 25595 86 + 1
---UUCUGGCUGCAAAUGAAUGCACAUUAUUCUUGGGAGU--UUUCCACUCCCUUGGUCUUAUUACCCC-----------CUUCUACU---UAGUAGCUUUCUUU--------
---....((((((....(((((.....)))))..((((((--.....))))))..(((......)))..-----------........---..))))))......-------- ( -18.90)
>DroYak_CAF1 34732 97 + 1
---UUCUGGCUACAAGUGAAUGCACAUUAUUCUUAGGAGU--UUUCCACUCCCUUGGCUUUAUUACCCCCUCAGAAUCACCUUCUACU---UAGUAGCUUUCUUU--------
---....(((((((((((((((.....)))))...(((((--.....)))))....................((((.....)))))))---).))))))......-------- ( -17.10)
>DroPer_CAF1 27936 106 + 1
GUCUCCUGGGUACAAAUGAAUGCACAUUACUCUUAGGAGAGUUUCUUCUUUUCUCAGAUUUCUCUCUCC-UGU------CCUUCCACUUUUGAGUUGCUUUCUUUCUCCGUGG
....((((((...(((.(((.(((....((((.((((((((.....(((......))).....))))))-)).------............))))))).)))))).)))).)) ( -21.34)
>consensus
___UUCUGGCUACAAAUGAAUGCACAUUAUUCUUAGGAGU__UUUCCACUCCCUUGGUUUUAUUACCCC_UCACAAUCACCUCCUACU___UAGUAGCUUUCUUU________
.......((((((....(((((.....)))))...(((((.......)))))...(((......)))..........................)))))).............. (-10.69 = -10.80 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 1,768,780 – 1,768,876
Length 96
Sequences 6
Columns 113
Reading direction reverse
Mean pairwise identity 76.37
Mean single sequence MFE -22.42
Consensus MFE -11.61
Energy contribution -11.28
Covariance contribution -0.33
Combinations/Pair 1.24
Mean z-score -2.91
Structure conservation index 0.52
SVM decision value 2.35
SVM RNA-class probability 0.992735
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1768780 96 - 22407834
--------AAAGAAAGCUACUA---AGUAGGAAGUGAUUGUGA-GGGGUAAUAAAACCAAGGGAGUGGAAA--ACUCCAAAGAAUAAUGUGCAUUCAUUUGUAGCCAGGA---
--------.......(((((..---......((((((.(((..-..(((......)))...(((((.....--)))))............))).))))))))))).....--- ( -21.20)
>DroSec_CAF1 25767 91 - 1
--------AAAGAAAGCUACUA---AGUAGGAAGUGAUUGUGA-GGGGUAAUAAAACCAAGGGAGUGGAAA--ACUCCAAAGAAUAAUGUGCAUUCAUUUGUAGA--------
--------........((((..---.)))).((((((.(((..-..(((......)))...(((((.....--)))))............))).)))))).....-------- ( -18.40)
>DroSim_CAF1 28091 96 - 1
--------AAAGAAAGCUACUA---AGUAGGAAGUGUGCGUGA-GGGGUAAUAAAACCAAGGGAGUGGAAA--ACUCCGAAGAAUAAUGUGCAUUCAUUUGUAGCCAGAA---
--------.......(((((.(---(((.((..(((..(((..-..(((......)))...(((((.....--)))))........)))..)))))))))))))).....--- ( -24.10)
>DroEre_CAF1 25595 86 - 1
--------AAAGAAAGCUACUA---AGUAGAAG-----------GGGGUAAUAAGACCAAGGGAGUGGAAA--ACUCCCAAGAAUAAUGUGCAUUCAUUUGCAGCCAGAA---
--------........((((..---.))))..(-----------(.(((......)))..((((((.....--))))))..........((((......)))).))....--- ( -20.10)
>DroYak_CAF1 34732 97 - 1
--------AAAGAAAGCUACUA---AGUAGAAGGUGAUUCUGAGGGGGUAAUAAAGCCAAGGGAGUGGAAA--ACUCCUAAGAAUAAUGUGCAUUCACUUGUAGCCAGAA---
--------.......(((((.(---(((.(((.((.(((((.....(((......)))..((((((.....--)))))).))))).....)).)))))))))))).....--- ( -25.60)
>DroPer_CAF1 27936 106 - 1
CCACGGAGAAAGAAAGCAACUCAAAAGUGGAAGG------ACA-GGAGAGAGAAAUCUGAGAAAAGAAGAAACUCUCCUAAGAGUAAUGUGCAUUCAUUUGUACCCAGGAGAC
((((.(((...........)))....))))..((------..(-((((((.....(((......))).....))))))).........(((((......)))))))....... ( -25.10)
>consensus
________AAAGAAAGCUACUA___AGUAGAAAGUGAUUGUGA_GGGGUAAUAAAACCAAGGGAGUGGAAA__ACUCCAAAGAAUAAUGUGCAUUCAUUUGUAGCCAGAA___
................(((((....)))))..............(((((.......(((......))).....)))))...........((((......)))).......... (-11.61 = -11.28 +  -0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:40:05 2006