Locus 7837

Sequence ID 3L_DroMel_CAF1
Location 20,982,444 – 20,982,647
Length 203
Max. P 0.990474
window12758 window12759

overview

Window 8

Location 20,982,444 – 20,982,542
Length 98
Sequences 5
Columns 98
Reading direction forward
Mean pairwise identity 90.82
Mean single sequence MFE -21.47
Consensus MFE -16.44
Energy contribution -17.24
Covariance contribution 0.80
Combinations/Pair 1.10
Mean z-score -2.10
Structure conservation index 0.77
SVM decision value 0.95
SVM RNA-class probability 0.887357
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20982444 98 + 23771897
CUUAAAUUUAUUUAACUAAUACAUCACUGAAGCGAAUCAACUAACUAGGGACUUAGUUAGUGGGACCAGCUUUAGUCCCCCCAAUUCGCCACCCCCAG
...............................((((((..(((((((((....)))))))))(((((........)))))....))))))......... ( -22.60)
>DroSec_CAF1 113 98 + 1
CUUAAAUUUAUUUACCUAAUACAUCACUGAAGCGAAUCGACUAACUAGGGACUUAGUUAGUGGGACCUGCUUUACUCCACCCAAUUCGCCACCCCCAG
...............................((((((..(((((((((....)))))))))(((...............))).))))))......... ( -17.76)
>DroSim_CAF1 7511 98 + 1
CUUAAAUUUAUUUACCUAAUACAUCACUGAAGCGAAUCGACUAACUAGGGACUUAGUUAGUGGGACCUGCUUUAGUCCACCCAAUUCGCCACCCCCAG
.........................(((((((((..((.(((((((((....))))))))).))...)))))))))...................... ( -21.30)
>DroEre_CAF1 3207 98 + 1
CUUAAAUUUAUUUACCUAACACCUAAUUGAAGCGGAUCAACUAACUAGGGACUUAGUUAGUGGGACCUCUUUUAGUCCCCUCAAUUCGCCACCCCCAC
...............................((((((..(((((((((....)))))))))(((((........)))))....))))))......... ( -22.10)
>DroYak_CAF1 6204 98 + 1
CUUAAAUUUAUUUACCUAAUACAUAAUUGAAGAGGAGCAACUAACUAGGGAAUUAGUUAGUGGGAGCUGCUUAAGUUCCCCCAAUUCGCCACCCCCAG
............................(((..((....(((((((((....)))))))))(((((((.....)))))))))..)))........... ( -23.60)
>consensus
CUUAAAUUUAUUUACCUAAUACAUCACUGAAGCGAAUCAACUAACUAGGGACUUAGUUAGUGGGACCUGCUUUAGUCCCCCCAAUUCGCCACCCCCAG
...............................((((((..(((((((((....)))))))))(((((........)))))....))))))......... (-16.44 = -17.24 +   0.80)

alignment

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secondary structure

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dotplot

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Window 9

Location 20,982,542 – 20,982,647
Length 105
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 75.84
Mean single sequence MFE -31.97
Consensus MFE -22.80
Energy contribution -22.97
Covariance contribution 0.17
Combinations/Pair 1.00
Mean z-score -2.61
Structure conservation index 0.71
SVM decision value 2.22
SVM RNA-class probability 0.990474
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20982542 105 - 23771897
---------AAAAGCCACUUACCAGUAAAUCUCGUUGGAGGUAAUCAUAUUGGUGGUCUUGUAAUACUGGGCGGCAGUGUAGCUGCUCAUUCUGCCG-UG-UGUUUUUGUUGUUUU----
---------((((((((((((((((((.(((((....))))).....)))))))))...........((((((((......)))))))).......)-))-.))))))........---- ( -29.60)
>DroPse_CAF1 204 106 - 1
---------C-AGGACACUUACCAGUAGAUCUCAUUGGAGGUAAUCAUAUUGGUGGUCUUGUAGUACUGGGCGGCAGUGUAGCUGCUCAUUGUGUUUCAGCUG---CUGUCAUUUA-CUU
---------(-(((((...((((((((.(((((....))))).....)))))))))))))).((((...(((((((((..(((.((.....)))))...))))---)))))...))-)). ( -37.30)
>DroGri_CAF1 1 103 - 1
AUAUAUGUAAAGUGAGACUUACCAGUAGAUCUCAUUGGAGGUAAUCAUAUUGGUGGUCUUGUAGUAUUGGGCGGCCGUGUAGCUACUCAUUUUGUAGAUA-UA---U-------------
((((((.((..(..(((((.(((((((.(((((....))))).....))))))))))))..).....((((..((......))..)))).....)).)))-))---)------------- ( -29.50)
>DroEre_CAF1 3305 107 - 1
---------AAAAGCAACUUACCAGUAAAUCUCAUUGGAGGUAAUCAUAUUGGUGGUCUUGUAAUACUGGGCGGCAGUGUAGCUGCUCAUUCUGCCGAUG-UG---UUGUUGUUUUUUUU
---------(((((((((..........(((((....)))))...((((((((..(...........((((((((......))))))))..)..))))))-))---..)))))))))... ( -33.92)
>DroAna_CAF1 1 90 - 1
---------AG----GACUUACCAGUAUAUCUCAUUGGAGGUAAUCAUAUUGGUGGUCUUGUAGUACUGGGCGGCAGUAUAGCUGCUCAUUCUGACGGUC-UA---U-------------
---------((----((((.(((((((((((((....))))))....))))))))))))).(((...((((((((......))))))))..)))......-..---.------------- ( -31.00)
>DroPer_CAF1 1 90 - 1
---------C-AGGACACUUACCAGUAGAUCUCAUUGGAGGUAAUCAUAUUGGUGGUCUUGUAGUACUGGGCGGCAGUGUAGCUGCUCAUUGUGUUUCAG--------------------
---------(-(((((...((((((((.(((((....))))).....))))))))))))))......((((((((......))))))))...........-------------------- ( -30.50)
>consensus
_________AAAAGACACUUACCAGUAGAUCUCAUUGGAGGUAAUCAUAUUGGUGGUCUUGUAGUACUGGGCGGCAGUGUAGCUGCUCAUUCUGUCGAUG_UG___U_____________
..................(((((((((.(((((....))))).....)))))))))...........((((((((......))))))))............................... (-22.80 = -22.97 +   0.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:58:17 2006