Locus 6594

Sequence ID 2L_DroMel_CAF1
Location 18,519,256 – 18,519,391
Length 135
Max. P 0.993450
window10526 window10527 window10528

overview

Window 6

Location 18,519,256 – 18,519,363
Length 107
Sequences 3
Columns 107
Reading direction forward
Mean pairwise identity 98.13
Mean single sequence MFE -32.10
Consensus MFE -31.04
Energy contribution -30.60
Covariance contribution -0.44
Combinations/Pair 1.08
Mean z-score -2.45
Structure conservation index 0.97
SVM decision value 1.46
SVM RNA-class probability 0.955706
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18519256 107 + 22407834
AAAACACUUUCGCUUUCUUGUUUGUUCCACGCCUUUGUGGUAGUAUUUACUGCUGUCGCUGGCGUUGCUGAUUUUCCUGUUGCCUGUGUUGGUGGUAGGAAAUCAUG
.(((((............)))))((...(((((...(((..((((.....))))..))).))))).))((((((.((((..(((......)))..)))))))))).. ( -33.00)
>DroSec_CAF1 39645 107 + 1
AAAACACUUUCGCUUUCUUGCUUGUUCCACGCCUUUGUGGUAGUAUUUACUGCUGUCGCUGGUGUUGCUUAUUUUCCUGUUGCCUGUGUUGGUGGUAGGAAAUCAUG
...........((......))..((...(((((...(((..((((.....))))..))).))))).))....(((((((..(((......)))..)))))))..... ( -30.80)
>DroSim_CAF1 40549 107 + 1
AAAACACUUUCGCUUUCUUGCUUGUUCCACGCCUUUGUGGUAGUAUUUACUGCUGUCGCUGGUGUUGCUGAUUUUCCUGUUGCCUGUGUUGGUGGUAGGAAAUCAUG
...........((......))..((...(((((...(((..((((.....))))..))).))))).))((((((.((((..(((......)))..)))))))))).. ( -32.50)
>consensus
AAAACACUUUCGCUUUCUUGCUUGUUCCACGCCUUUGUGGUAGUAUUUACUGCUGUCGCUGGUGUUGCUGAUUUUCCUGUUGCCUGUGUUGGUGGUAGGAAAUCAUG
...........((......))..((...(((((...(((..((((.....))))..))).))))).))....(((((((..(((......)))..)))))))..... (-31.04 = -30.60 +  -0.44)

alignment

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secondary structure

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dotplot

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Window 7

Location 18,519,292 – 18,519,391
Length 99
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 83.61
Mean single sequence MFE -36.64
Consensus MFE -28.22
Energy contribution -28.66
Covariance contribution 0.44
Combinations/Pair 1.10
Mean z-score -2.91
Structure conservation index 0.77
SVM decision value 2.40
SVM RNA-class probability 0.993450
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18519292 99 + 22407834
---------GUGGUAGUAUUUACUGCUGUCGCUGGCGUUGCUGAUUUUCCUGUUGCCUGUGUUGGUGGUAGGAAAUCAUGUGCAAAGUCACAUGACGAUGACGG------------UACG
---------..((((((....))))))((.((((.(((((.....(((((((..(((......)))..)))))))(((((((......)))))))))))).)))------------))). ( -35.60)
>DroPse_CAF1 48192 114 + 1
UGUGAAGUAGUAGUAGUGGCUGCUGCUGUCGUUGGUGUUCCCGCUUUUCGU------CGUGUUGGUGGUAGGAAAUCAUGUGCAAAGUCACAUGACGAUGACGAUGACGAUGACUUUACG
.(((((((((((((((...))))))))(((((((...((((..((..(((.------.....))).))..)))).(((((((......))))))))))))))..........))))))). ( -38.80)
>DroSec_CAF1 39681 99 + 1
---------GUGGUAGUAUUUACUGCUGUCGCUGGUGUUGCUUAUUUUCCUGUUGCCUGUGUUGGUGGUAGGAAAUCAUGUGCAAAGUCACAUGACGAUGACGA------------UACG
---------(((..((((.....))))..)))..((((((.(((((((((((..(((......)))..)))))).(((((((......))))))).))))))))------------))). ( -36.20)
>DroSim_CAF1 40585 99 + 1
---------GUGGUAGUAUUUACUGCUGUCGCUGGUGUUGCUGAUUUUCCUGUUGCCUGUGUUGGUGGUAGGAAAUCAUGUGCAAAGUCACAUGACGAUGACGA------------UACG
---------(((..((((.....))))..)))..((((((.....(((((((..(((......)))..)))))))(((((((......)))))))......)))------------))). ( -34.80)
>DroYak_CAF1 39601 98 + 1
---------GUGGUAGUAU-UGCUGCCGUCGCUGGUGUUGCUGAUUUUCCUGUUGCCUGUGUUGGUGGUAGGAAAUCAUGUGCAAAGUCACAUGACGAUGACGC------------UACG
---------..(((((...-..)))))..((.(((((((..((..(((((((..(((......)))..)))))))(((((((......)))))))))..)))))------------)))) ( -37.80)
>consensus
_________GUGGUAGUAUUUACUGCUGUCGCUGGUGUUGCUGAUUUUCCUGUUGCCUGUGUUGGUGGUAGGAAAUCAUGUGCAAAGUCACAUGACGAUGACGA____________UACG
...........((((((....))))))((((.((...........(((((((..(((......)))..)))))))(((((((......))))))))).)))).................. (-28.22 = -28.66 +   0.44)

alignment

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secondary structure

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dotplot

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Window 8

Location 18,519,292 – 18,519,391
Length 99
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 83.61
Mean single sequence MFE -20.58
Consensus MFE -16.12
Energy contribution -16.72
Covariance contribution 0.60
Combinations/Pair 1.00
Mean z-score -1.55
Structure conservation index 0.78
SVM decision value 0.07
SVM RNA-class probability 0.567718
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18519292 99 - 22407834
CGUA------------CCGUCAUCGUCAUGUGACUUUGCACAUGAUUUCCUACCACCAACACAGGCAACAGGAAAAUCAGCAACGCCAGCGACAGCAGUAAAUACUACCAC---------
..((------------(.((..((((((((((......)))))).((((((....((......))....)))))).............))))..)).)))...........--------- ( -19.90)
>DroPse_CAF1 48192 114 - 1
CGUAAAGUCAUCGUCAUCGUCAUCGUCAUGUGACUUUGCACAUGAUUUCCUACCACCAACACG------ACGAAAAGCGGGAACACCAACGACAGCAGCAGCCACUACUACUACUUCACA
.((.((((....(((.(((((...((((((((......))))))))................)------)))).....((.....))...))).((....))..........)))).)). ( -21.71)
>DroSec_CAF1 39681 99 - 1
CGUA------------UCGUCAUCGUCAUGUGACUUUGCACAUGAUUUCCUACCACCAACACAGGCAACAGGAAAAUAAGCAACACCAGCGACAGCAGUAAAUACUACCAC---------
....------------..(((....(((((((......)))))))((((((....((......))....))))))....((.......)))))..................--------- ( -19.30)
>DroSim_CAF1 40585 99 - 1
CGUA------------UCGUCAUCGUCAUGUGACUUUGCACAUGAUUUCCUACCACCAACACAGGCAACAGGAAAAUCAGCAACACCAGCGACAGCAGUAAAUACUACCAC---------
....------------..(((....(((((((......)))))))((((((....((......))....))))))....((.......)))))..................--------- ( -19.30)
>DroYak_CAF1 39601 98 - 1
CGUA------------GCGUCAUCGUCAUGUGACUUUGCACAUGAUUUCCUACCACCAACACAGGCAACAGGAAAAUCAGCAACACCAGCGACGGCAGCA-AUACUACCAC---------
....------------(((((.((((((((((......)))))).((((((....((......))....)))))).............)))).))).)).-..........--------- ( -22.70)
>consensus
CGUA____________UCGUCAUCGUCAUGUGACUUUGCACAUGAUUUCCUACCACCAACACAGGCAACAGGAAAAUCAGCAACACCAGCGACAGCAGUAAAUACUACCAC_________
..................(((....(((((((......)))))))((((((....((......))....))))))...............)))........................... (-16.12 = -16.72 +   0.60)

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 12:15:10 2006