Locus 5878

Sequence ID 2L_DroMel_CAF1
Location 16,622,875 – 16,622,972
Length 97
Max. P 0.967057
window9327 window9328

overview

Window 7

Location 16,622,875 – 16,622,972
Length 97
Sequences 5
Columns 98
Reading direction forward
Mean pairwise identity 81.34
Mean single sequence MFE -27.56
Consensus MFE -19.26
Energy contribution -19.86
Covariance contribution 0.60
Combinations/Pair 1.00
Mean z-score -2.30
Structure conservation index 0.70
SVM decision value 1.39
SVM RNA-class probability 0.949682
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16622875 97 + 22407834
AUGUCUUGUCAGUGGCUGUCAAACUGUAGGCAGUCAGCCAGCCAGGCGACACAGGUAUGUAUAUGUAUAUAUAUGUAC-AUAGGUAGAAAACAGCUAA
.(((.(((((..((((((.(..((((....))))..).))))))))))).)))..(((((((((((....))))))))-)))................ ( -29.90)
>DroSec_CAF1 77810 79 + 1
AUGUCUUGUCAGUGGCUGUCAAACUGUAGGCAGUCAGCCAGCCAGGCGACACAGGUAUAU-------------------GUAGGUAGAAAACGUCUAA
((..((((((..((((((((........))))))))(((.....))))))).))..))..-------------------.....((((.....)))). ( -23.00)
>DroSim_CAF1 76990 79 + 1
AUGUCUUGUCAGUGGCUGUCAAACUGUAGGCAGUCAGCCAGCCAGGCGACACAGGUAUAU-------------------GUAGGUAGAAAACGUCUAA
((..((((((..((((((((........))))))))(((.....))))))).))..))..-------------------.....((((.....)))). ( -23.00)
>DroEre_CAF1 78960 97 + 1
AUGUCUUGCCAGUUCCUGUCAAACUGUAGGCAGUCAGCCAGCCAGGCGACACAGGUAUAUGUACAUAUACUCGUAUAUAGUAGGUAGAA-ACGGCUAA
.......(((.(((.((..(..((((((.((.(((.(((.....))))))...(((((((....))))))).)).)))))).)..)).)-)))))... ( -28.10)
>DroYak_CAF1 76847 90 + 1
AUGUCUUGUCAGUGGCUGUCAAACUGCAGGCAGUCAGCCAGCCAGGCGACACAGGUAUACCUACAUACA------UAU-GUAGGUAGAA-AGGGCUAA
..((((((((..((((((((........))))))))(((.....)))))).......(((((((((...------.))-)))))))...-)))))... ( -33.80)
>consensus
AUGUCUUGUCAGUGGCUGUCAAACUGUAGGCAGUCAGCCAGCCAGGCGACACAGGUAUAU_UA__UA_A______UA__GUAGGUAGAAAACGGCUAA
((..((((((..((((((((........))))))))(((.....))))))).))..))........................................ (-19.26 = -19.86 +   0.60)

alignment

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secondary structure

Postscript

dotplot

Postscript

Window 8

Location 16,622,875 – 16,622,972
Length 97
Sequences 5
Columns 98
Reading direction reverse
Mean pairwise identity 81.34
Mean single sequence MFE -25.24
Consensus MFE -18.14
Energy contribution -18.38
Covariance contribution 0.24
Combinations/Pair 1.06
Mean z-score -2.38
Structure conservation index 0.72
SVM decision value 1.60
SVM RNA-class probability 0.967057
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16622875 97 - 22407834
UUAGCUGUUUUCUACCUAU-GUACAUAUAUAUACAUAUACAUACCUGUGUCGCCUGGCUGGCUGACUGCCUACAGUUUGACAGCCACUGACAAGACAU
.....((((((.....(((-(((........))))))...........((((..((((((...(((((....)))))...)))))).)))))))))). ( -24.30)
>DroSec_CAF1 77810 79 - 1
UUAGACGUUUUCUACCUAC-------------------AUAUACCUGUGUCGCCUGGCUGGCUGACUGCCUACAGUUUGACAGCCACUGACAAGACAU
......(((((......((-------------------(......)))((((..((((((...(((((....)))))...)))))).))))))))).. ( -20.90)
>DroSim_CAF1 76990 79 - 1
UUAGACGUUUUCUACCUAC-------------------AUAUACCUGUGUCGCCUGGCUGGCUGACUGCCUACAGUUUGACAGCCACUGACAAGACAU
......(((((......((-------------------(......)))((((..((((((...(((((....)))))...)))))).))))))))).. ( -20.90)
>DroEre_CAF1 78960 97 - 1
UUAGCCGU-UUCUACCUACUAUAUACGAGUAUAUGUACAUAUACCUGUGUCGCCUGGCUGGCUGACUGCCUACAGUUUGACAGGAACUGGCAAGACAU
...(((((-((((...........(((.((((((....)))))).)))((((.(((...(((.....)))..)))..)))))))))).)))....... ( -28.10)
>DroYak_CAF1 76847 90 - 1
UUAGCCCU-UUCUACCUAC-AUA------UGUAUGUAGGUAUACCUGUGUCGCCUGGCUGGCUGACUGCCUGCAGUUUGACAGCCACUGACAAGACAU
........-...(((((((-((.------...)))))))))...((.(((((..((((((...(((((....)))))...)))))).))))))).... ( -32.00)
>consensus
UUAGCCGUUUUCUACCUAC__UA______U_UA__UA_AUAUACCUGUGUCGCCUGGCUGGCUGACUGCCUACAGUUUGACAGCCACUGACAAGACAU
............................................((.(((((..((((((...(((((....)))))...)))))).))))))).... (-18.14 = -18.38 +   0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:55:16 2006