Locus 6300

Sequence ID 3L_DroMel_CAF1
Location 16,791,588 – 16,791,722
Length 134
Max. P 0.980237
window10106 window10107 window10108

overview

Window 6

Location 16,791,588 – 16,791,685
Length 97
Sequences 3
Columns 97
Reading direction reverse
Mean pairwise identity 81.99
Mean single sequence MFE -16.40
Consensus MFE -13.92
Energy contribution -13.70
Covariance contribution -0.22
Combinations/Pair 1.06
Mean z-score -1.18
Structure conservation index 0.85
SVM decision value 0.02
SVM RNA-class probability 0.545959
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16791588 97 - 23771897
GCAUGCACUUCACUGCAAAUAAAUGGCCAAUUGGAAUUCUCGAUCCAGUCAUCAAUAUUUCCAAUCAGUUUCCAUUGAUAAGGUCUCCAGUGUCACC
(((((((......)))........((((...(((((.....(((......))).....)))))((((((....))))))..))))....)))).... ( -16.80)
>DroSec_CAF1 40037 78 - 1
-------CUU------------AUGACCAGUUGGAAUUCUCGAUCCAGUCAUCGAUGUUUCCAAUCAGUUCCCAUUGAUAAGGUCUCCAGUGUCACC
-------...------------..((((...(((((...(((((......)))))...)))))((((((....))))))..))))............ ( -18.50)
>DroSim_CAF1 44393 78 - 1
-------CUU------------AUGACCAGUUGGAAUUCUCGAUCCAGUCAUCUAUGUUUCCAAUCAGUUCCCAUUGAUAAGGUCUCCAGUGUCACC
-------...------------..((((...(((((.....(((......))).....)))))((((((....))))))..))))............ ( -13.90)
>consensus
_______CUU____________AUGACCAGUUGGAAUUCUCGAUCCAGUCAUCAAUGUUUCCAAUCAGUUCCCAUUGAUAAGGUCUCCAGUGUCACC
........................((((...(((((.....(((......))).....)))))((((((....))))))..))))............ (-13.92 = -13.70 +  -0.22)

alignment

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secondary structure

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dotplot

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Window 7

Location 16,791,619 – 16,791,722
Length 103
Sequences 3
Columns 105
Reading direction forward
Mean pairwise identity 79.25
Mean single sequence MFE -24.37
Consensus MFE -14.07
Energy contribution -14.41
Covariance contribution 0.34
Combinations/Pair 1.08
Mean z-score -2.88
Structure conservation index 0.58
SVM decision value 1.60
SVM RNA-class probability 0.966997
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16791619 103 + 23771897
GAUUGGAAAUAUUGAUGACUGGAUCGAGAAUUCCAAUUGGCCAUUUAUUUGCAGUGAAGUGCAUGCUAAAUGAUUAGUUUGUCUUUGAUUCAGACAUCUAUUU--
.............((((.(((((((((..((...(((((..((((((..((((......))))...))))))..))))).))..))))))))).)))).....-- ( -25.50)
>DroSec_CAF1 40068 86 + 1
GAUUGGAAACAUCGAUGACUGGAUCGAGAAUUCCAACUGGUCAU------------AAG-------UAAAUGAUUAGCUUGUCUUAAAUUCAGACAUAUAUGUGC
..((((((...(((((......)))))...))))))((((((((------------...-------...))))))))..(((((.......)))))......... ( -21.10)
>DroSim_CAF1 44424 84 + 1
GAUUGGAAACAUAGAUGACUGGAUCGAGAAUUCCAACUGGUCAU------------AAG-------UAAAUGAUUAGCUUGUCUUAAAUUCAGACAUCUAUGU--
........(((((((((.((((((.((((....(((((((((((------------...-------...)))))))).)))))))..)))))).)))))))))-- ( -26.50)
>consensus
GAUUGGAAACAUAGAUGACUGGAUCGAGAAUUCCAACUGGUCAU____________AAG_______UAAAUGAUUAGCUUGUCUUAAAUUCAGACAUCUAUGU__
..((((((...(((((......)))))...))))))((((((((.........................))))))))..(((((.......)))))......... (-14.07 = -14.41 +   0.34)

alignment

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secondary structure

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dotplot

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Window 8

Location 16,791,619 – 16,791,722
Length 103
Sequences 3
Columns 105
Reading direction reverse
Mean pairwise identity 79.25
Mean single sequence MFE -19.97
Consensus MFE -11.62
Energy contribution -11.40
Covariance contribution -0.22
Combinations/Pair 1.07
Mean z-score -3.00
Structure conservation index 0.58
SVM decision value 1.86
SVM RNA-class probability 0.980237
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16791619 103 - 23771897
--AAAUAGAUGUCUGAAUCAAAGACAAACUAAUCAUUUAGCAUGCACUUCACUGCAAAUAAAUGGCCAAUUGGAAUUCUCGAUCCAGUCAUCAAUAUUUCCAAUC
--.....((((.(((.(((.............(((((((...((((......))))..)))))))((....)).......))).))).))))............. ( -20.90)
>DroSec_CAF1 40068 86 - 1
GCACAUAUAUGUCUGAAUUUAAGACAAGCUAAUCAUUUA-------CUU------------AUGACCAGUUGGAAUUCUCGAUCCAGUCAUCGAUGUUUCCAAUC
.........(((((.......)))))((((..((((...-------...------------))))..))))((((...(((((......)))))...)))).... ( -17.70)
>DroSim_CAF1 44424 84 - 1
--ACAUAGAUGUCUGAAUUUAAGACAAGCUAAUCAUUUA-------CUU------------AUGACCAGUUGGAAUUCUCGAUCCAGUCAUCUAUGUUUCCAAUC
--(((((((((.(((...(..(((..((((..((((...-------...------------))))..)))).....)))..)..))).)))))))))........ ( -21.30)
>consensus
__ACAUAGAUGUCUGAAUUUAAGACAAGCUAAUCAUUUA_______CUU____________AUGACCAGUUGGAAUUCUCGAUCCAGUCAUCAAUGUUUCCAAUC
.........(((((.......)))))..........................................(((((((.....(((......))).....))))))). (-11.62 = -11.40 +  -0.22)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:15:06 2006