Locus 6449

Sequence ID X_DroMel_CAF1
Location 16,166,676 – 16,166,951
Length 275
Max. P 0.966252
window10531 window10532 window10533 window10534 window10535

overview

Window 1

Location 16,166,676 – 16,166,782
Length 106
Sequences 4
Columns 112
Reading direction forward
Mean pairwise identity 93.12
Mean single sequence MFE -34.02
Consensus MFE -25.88
Energy contribution -27.12
Covariance contribution 1.25
Combinations/Pair 1.00
Mean z-score -3.28
Structure conservation index 0.76
SVM decision value 0.65
SVM RNA-class probability 0.811217
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16166676 106 + 22224390
AUUCGAAUUGAAAGUACAGUCAGACGGGAA------CACACAAAAUGAAAAUGUGUAUGUGUAUGUAGCGGGUCGCUGCGAUGUACAUAUGUUUGUGUGUUCCACACGUAUG
..((..((((......))))..))..((((------((((((((......((((((((((...(((((((...))))))))))))))))).))))))))))))......... ( -35.40)
>DroSec_CAF1 6699 106 + 1
AUUCGAAUUGAAAGUACAGUCAGACGGGAA------CACACAAAAUGAAAAUGUGUAUGUGUAUGUAGCGGGUCGCUGCGAUGUACAUAUGUUUGUGUGUUCCACACGUAUG
..((..((((......))))..))..((((------((((((((......((((((((((...(((((((...))))))))))))))))).))))))))))))......... ( -35.40)
>DroSim_CAF1 7051 106 + 1
AUUCGAAUUGAAAGUACAGUCAGACGGGAA------CACACAAAAUGAAAAUGUGUAUGUGUAUGUAGCGGGUCGCUGCGAUGUACAUAUGUUUGUGUGUUCCACACGUAUG
..((..((((......))))..))..((((------((((((((......((((((((((...(((((((...))))))))))))))))).))))))))))))......... ( -35.40)
>DroEre_CAF1 7056 106 + 1
AUUCGAAUUGGAAGUACAGUCAGACGGGAACACAAACACACAAAAUGAAAAUGUG------UAUGUAGCGGGUCGCUGCGAUGUACAUAUGUUUGUGUGUUCCACACGUUUA
..((..((((......))))..)).((((((((((((.((.....))...(((((------(((((.((((....)))).)))))))))))))))))).))))......... ( -29.90)
>consensus
AUUCGAAUUGAAAGUACAGUCAGACGGGAA______CACACAAAAUGAAAAUGUGUAUGUGUAUGUAGCGGGUCGCUGCGAUGUACAUAUGUUUGUGUGUUCCACACGUAUG
..((..((((......))))..))..((((......((((((((......((((((((((...(((((((...))))))))))))))))).))))))))))))......... (-25.88 = -27.12 +   1.25)

alignment

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secondary structure

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Window 2

Location 16,166,710 – 16,166,820
Length 110
Sequences 4
Columns 111
Reading direction forward
Mean pairwise identity 93.51
Mean single sequence MFE -32.73
Consensus MFE -27.65
Energy contribution -28.77
Covariance contribution 1.13
Combinations/Pair 1.05
Mean z-score -1.79
Structure conservation index 0.84
SVM decision value 0.48
SVM RNA-class probability 0.751132
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16166710 110 + 22224390
CAAAAUGAAAAUGUGUAUGUGUAUGUAGCGGGUCGCUGCGAUGUACAUAUGUUUGUGUGUUCCACACGUAUGUACAUACAGCUGCGUUCGUGGAAAUAGCACUGA-AAGGC
......(((.((((((((((...(((((((...))))))))))))))))).)))((((.((((((((((((((....)))..)))))..))))))...))))...-..... ( -32.60)
>DroSec_CAF1 6733 110 + 1
CAAAAUGAAAAUGUGUAUGUGUAUGUAGCGGGUCGCUGCGAUGUACAUAUGUUUGUGUGUUCCACACGUAUGUACUUACAGCUGCGUUCGUGGAAAUAGCACUGA-AAGGC
......(((.((((((((((...(((((((...))))))))))))))))).)))((((.((((((((((((((....)))..)))))..))))))...))))...-..... ( -32.60)
>DroSim_CAF1 7085 110 + 1
CAAAAUGAAAAUGUGUAUGUGUAUGUAGCGGGUCGCUGCGAUGUACAUAUGUUUGUGUGUUCCACACGUAUGUACUUACAGCUGCGUUCGUGGAAAUAGCACUGA-AAGGC
......(((.((((((((((...(((((((...))))))))))))))))).)))((((.((((((((((((((....)))..)))))..))))))...))))...-..... ( -32.60)
>DroYak_CAF1 7742 105 + 1
CAAAAUGAAAAUGUG------UAUGUAGCGGGUCGCUGCGAUGUACAUAUGUUUGUGUGUUCCACACGUAUGUACAUACAGCUGCGUUCGUGGGAAUAGUAGUGCGAGAGC
...........((((------(.(((((((...)))))))..((((((((((..(((.....))))))))))))))))))(((((((((....)))).)))))((....)) ( -33.10)
>consensus
CAAAAUGAAAAUGUGUAUGUGUAUGUAGCGGGUCGCUGCGAUGUACAUAUGUUUGUGUGUUCCACACGUAUGUACAUACAGCUGCGUUCGUGGAAAUAGCACUGA_AAGGC
......(((.((((((((((...(((((((...))))))))))))))))).)))((((.((((((((((((((....)))..)))))..))))))...))))......... (-27.65 = -28.77 +   1.13)

alignment

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secondary structure

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dotplot

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Window 3

Location 16,166,710 – 16,166,820
Length 110
Sequences 4
Columns 111
Reading direction reverse
Mean pairwise identity 93.51
Mean single sequence MFE -23.83
Consensus MFE -20.57
Energy contribution -21.32
Covariance contribution 0.75
Combinations/Pair 1.00
Mean z-score -1.78
Structure conservation index 0.86
SVM decision value 0.58
SVM RNA-class probability 0.789294
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16166710 110 - 22224390
GCCUU-UCAGUGCUAUUUCCACGAACGCAGCUGUAUGUACAUACGUGUGGAACACACAAACAUAUGUACAUCGCAGCGACCCGCUACAUACACAUACACAUUUUCAUUUUG
((..(-((.(((.......)))))).)).((((((((((((((..((((.....))))....))))))))).))))).................................. ( -25.60)
>DroSec_CAF1 6733 110 - 1
GCCUU-UCAGUGCUAUUUCCACGAACGCAGCUGUAAGUACAUACGUGUGGAACACACAAACAUAUGUACAUCGCAGCGACCCGCUACAUACACAUACACAUUUUCAUUUUG
((..(-((.(((.......)))))).)).((((..((((((((..((((.....))))....))))))).)..)))).................................. ( -22.50)
>DroSim_CAF1 7085 110 - 1
GCCUU-UCAGUGCUAUUUCCACGAACGCAGCUGUAAGUACAUACGUGUGGAACACACAAACAUAUGUACAUCGCAGCGACCCGCUACAUACACAUACACAUUUUCAUUUUG
((..(-((.(((.......)))))).)).((((..((((((((..((((.....))))....))))))).)..)))).................................. ( -22.50)
>DroYak_CAF1 7742 105 - 1
GCUCUCGCACUACUAUUCCCACGAACGCAGCUGUAUGUACAUACGUGUGGAACACACAAACAUAUGUACAUCGCAGCGACCCGCUACAUA------CACAUUUUCAUUUUG
((..(((..............)))..)).((((((((((((((..((((.....))))....))))))))).))))).............------............... ( -24.74)
>consensus
GCCUU_UCAGUGCUAUUUCCACGAACGCAGCUGUAAGUACAUACGUGUGGAACACACAAACAUAUGUACAUCGCAGCGACCCGCUACAUACACAUACACAUUUUCAUUUUG
((........(((.............)))((((((((((((((..((((.....))))....))))))))).))))).....))........................... (-20.57 = -21.32 +   0.75)

alignment

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secondary structure

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dotplot

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Window 4

Location 16,166,750 – 16,166,860
Length 110
Sequences 4
Columns 111
Reading direction forward
Mean pairwise identity 89.29
Mean single sequence MFE -27.62
Consensus MFE -19.12
Energy contribution -19.50
Covariance contribution 0.38
Combinations/Pair 1.09
Mean z-score -1.75
Structure conservation index 0.69
SVM decision value 0.04
SVM RNA-class probability 0.553847
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16166750 110 + 22224390
AUGUACAUAUGUUUGUGUGUUCCACACGUAUGUACAUACAGCUGCGUUCGUGGAAAUAGCACUGA-AAGGCAUCAAACGGUUUUUUUCCGUAUUCCCUUUUGUUAAUUAAU
((((((((((((..(((.....)))))))))))))))...((((..((....))..))))...((-((((......((((.......))))....)))))).......... ( -27.70)
>DroSec_CAF1 6773 108 + 1
AUGUACAUAUGUUUGUGUGUUCCACACGUAUGUACUUACAGCUGCGUUCGUGGAAAUAGCACUGA-AAGGCAGCAAACGAUUUUAUUCUGAAUUCCCUUUGCUU--UGAAU
..((((((((((..(((.....))))))))))))).....(((((.((((((.......))).))-)..)))))..............................--..... ( -25.80)
>DroSim_CAF1 7125 110 + 1
AUGUACAUAUGUUUGUGUGUUCCACACGUAUGUACUUACAGCUGCGUUCGUGGAAAUAGCACUGA-AAGGCAGCAAACGAUUUUAUUCUGAAUUCCAUUUUGUUAAUGAAU
..((((((((((..(((.....))))))))))))).....(((((.((((((.......))).))-)..))))).....................((((.....))))... ( -26.50)
>DroYak_CAF1 7776 109 + 1
AUGUACAUAUGUUUGUGUGUUCCACACGUAUGUACAUACAGCUGCGUUCGUGGGAAUAGUAGUGCGAGAGCAUCAAACGGUU-U-UUUCGUAUUCCCUUUUGUUAAUUAAU
((((((((((((..(((.....)))))))))))))))..............((((((....((((....))))...((((..-.-..)))))))))).............. ( -30.50)
>consensus
AUGUACAUAUGUUUGUGUGUUCCACACGUAUGUACAUACAGCUGCGUUCGUGGAAAUAGCACUGA_AAGGCAGCAAACGAUUUUAUUCCGAAUUCCCUUUUGUUAAUGAAU
..((((((((((..(((.....))))))))))))).....(((((.((.(((.......)))....)).)))))..................................... (-19.12 = -19.50 +   0.38)

alignment

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secondary structure

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dotplot

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Window 5

Location 16,166,860 – 16,166,951
Length 91
Sequences 3
Columns 91
Reading direction reverse
Mean pairwise identity 90.30
Mean single sequence MFE -24.07
Consensus MFE -20.85
Energy contribution -20.97
Covariance contribution 0.11
Combinations/Pair 1.04
Mean z-score -3.25
Structure conservation index 0.87
SVM decision value 1.59
SVM RNA-class probability 0.966252
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16166860 91 - 22224390
AUAUGUUUUGUUAAAGAGCAGUGCAGGUACAAAAAGCCAUUUGUAACUGCUUUGCUUGUUUUGCGACACAGAAGACGAAGCGAAAAAAAAA
...(((((((((...((((((.((((.((((((......)))))).)))).)))))).(((((.....))))))))))))))......... ( -26.70)
>DroSec_CAF1 6881 86 - 1
AUAUGUUUUGUUAAAAAACAGUGCAGGUACUAAAAGCCAUUUGUAACUGCAUUGCUUGUUUUGGGACACAGAAGACGAAGCAA-----AGU
...(((((((((......((((((((.(((............))).))))))))....(((((.....)))))))))))))).-----... ( -23.40)
>DroSim_CAF1 7235 86 - 1
AUAUGUUUUGUUAAAAAACAGUGCAGGUACUAAAAGCCAUUUGUAACUGCAUUGCUUGUUUUGCGACACAGAAGACGAAGCAA-----AGU
...(((((((((......((((((((.(((............))).))))))))....(((((.....)))))))))))))).-----... ( -22.10)
>consensus
AUAUGUUUUGUUAAAAAACAGUGCAGGUACUAAAAGCCAUUUGUAACUGCAUUGCUUGUUUUGCGACACAGAAGACGAAGCAA_____AGU
...(((((((((......((((((((.(((............))).))))))))....(((((.....))))))))))))))......... (-20.85 = -20.97 +   0.11)

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 12:14:06 2006