Locus 8325

Sequence ID 3R_DroMel_CAF1
Location 22,227,047 – 22,227,196
Length 149
Max. P 0.999661
window13423 window13424 window13425

overview

Window 3

Location 22,227,047 – 22,227,162
Length 115
Sequences 3
Columns 117
Reading direction forward
Mean pairwise identity 75.07
Mean single sequence MFE -35.24
Consensus MFE -21.27
Energy contribution -23.07
Covariance contribution 1.79
Combinations/Pair 1.23
Mean z-score -3.06
Structure conservation index 0.60
SVM decision value 3.85
SVM RNA-class probability 0.999661
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22227047 115 + 27905053
AGGUGGCCAA-AUCUGAGGCGACAAUAUGUACAUAUAUACCAUACAUACAUAUGUA-UGUAUGUAAGUGUGAAAUGGUUGCAGUUGUCGCCAAGAGGCGUUUGCUGACUGGGCAAAU
.....(((..-.(((..(((((((((.(((((((((.(((.((((((((....)))-)))))))).))))).......))))))))))))).))))))(((((((.....))))))) ( -41.61)
>DroSim_CAF1 61375 111 + 1
AGGUCGCCAA-AUCUGAGGCGACAAUAUGUACAUAUAAACCAUA----CAUUUGUA-UGUAUAUAAGUGUGAAAUGGUUGCAGUUGUCGCCAAGAGGCGUUUGCUGACUGGGCAAAU
....((((..-.(((..((((((((((((((((((((((.....----..))))))-)))))))...((..(.....)..))))))))))).)))))))((((((.....)))))). ( -38.70)
>DroAna_CAF1 95308 109 + 1
AGGUGGCCAAAAUUUGGGAUGGCAACACAAAUUUCCAAACAGUA----UAUACGGAGUCCAUGUAUAUGUAAAGU----GAAGUUGUCGCCAACAGGGGUUUGCUGAGUGUGCAAAU
.((((((.....(((((((((....)).....)))))))...((----((((((.......))))))))......----......)))))).......((((((.......)))))) ( -25.40)
>consensus
AGGUGGCCAA_AUCUGAGGCGACAAUAUGUACAUAUAAACCAUA____CAUAUGUA_UGUAUGUAAGUGUGAAAUGGUUGCAGUUGUCGCCAAGAGGCGUUUGCUGACUGGGCAAAU
.....(((....(((..((((((((((((((((((((((...........)))))).)))))))...(((((.....)))))))))))))).))))))((((((.......)))))) (-21.27 = -23.07 +   1.79)

alignment

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secondary structure

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dotplot

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Window 4

Location 22,227,083 – 22,227,196
Length 113
Sequences 3
Columns 114
Reading direction forward
Mean pairwise identity 82.79
Mean single sequence MFE -32.07
Consensus MFE -18.69
Energy contribution -20.13
Covariance contribution 1.45
Combinations/Pair 1.04
Mean z-score -2.38
Structure conservation index 0.58
SVM decision value 0.05
SVM RNA-class probability 0.559942
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22227083 113 + 27905053
UACCAUACAUACAUAUGUA-UGUAUGUAAGUGUGAAAUGGUUGCAGUUGUCGCCAAGAGGCGUUUGCUGACUGGGCAAAUUGUGAGUUUCAUUGAUUUUCAGUUUCACACUUGG
...(((((((((....)))-))))))((((((((((.......((((...((((....))))...))))((((((......(((.....))).....)))))))))))))))). ( -39.10)
>DroSim_CAF1 61411 109 + 1
AACCAUA----CAUUUGUA-UGUAUAUAAGUGUGAAAUGGUUGCAGUUGUCGCCAAGAGGCGUUUGCUGACUGGGCAAAUUGUGAGUUUCAUUGAUUUUCAGUUUCACACUUGG
...((((----(....)))-))....((((((((((.......((((...((((....))))...))))((((((......(((.....))).....)))))))))))))))). ( -32.50)
>DroAna_CAF1 95345 106 + 1
AACAGUA----UAUACGGAGUCCAUGUAUAUGUAAAGU----GAAGUUGUCGCCAACAGGGGUUUGCUGAGUGUGCAAAUUGUAAGUUUCAUUGAUUUUCAGUUUCACACUUGG
.....((----((((((.......))))))))......----..(((...(.((....)).)...)))(((((((.((((((.(((((.....))))).))))))))))))).. ( -24.60)
>consensus
AACCAUA____CAUAUGUA_UGUAUGUAAGUGUGAAAUGGUUGCAGUUGUCGCCAAGAGGCGUUUGCUGACUGGGCAAAUUGUGAGUUUCAUUGAUUUUCAGUUUCACACUUGG
..........................((((((((((.......((((...((((....))))...)))).........((((.(((((.....))))).)))))))))))))). (-18.69 = -20.13 +   1.45)

alignment

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secondary structure

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dotplot

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Window 5

Location 22,227,083 – 22,227,196
Length 113
Sequences 3
Columns 114
Reading direction reverse
Mean pairwise identity 82.79
Mean single sequence MFE -25.67
Consensus MFE -17.07
Energy contribution -17.30
Covariance contribution 0.23
Combinations/Pair 1.11
Mean z-score -3.40
Structure conservation index 0.67
SVM decision value 1.96
SVM RNA-class probability 0.983899
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22227083 113 - 27905053
CCAAGUGUGAAACUGAAAAUCAAUGAAACUCACAAUUUGCCCAGUCAGCAAACGCCUCUUGGCGACAACUGCAACCAUUUCACACUUACAUACA-UACAUAUGUAUGUAUGGUA
..((((((((((.((....................(((((.......)))))((((....))))...........)))))))))))).((((((-(((....)))))))))... ( -33.70)
>DroSim_CAF1 61411 109 - 1
CCAAGUGUGAAACUGAAAAUCAAUGAAACUCACAAUUUGCCCAGUCAGCAAACGCCUCUUGGCGACAACUGCAACCAUUUCACACUUAUAUACA-UACAAAUG----UAUGGUU
..((((((((((.((....................(((((.......)))))((((....))))...........)))))))))))).....((-(((....)----))))... ( -27.00)
>DroAna_CAF1 95345 106 - 1
CCAAGUGUGAAACUGAAAAUCAAUGAAACUUACAAUUUGCACACUCAGCAAACCCCUGUUGGCGACAACUUC----ACUUUACAUAUACAUGGACUCCGUAUA----UACUGUU
....(((((((..((((..................(((((.......))))).....((((....)))))))----).)))))))(((.((((...)))).))----)...... ( -16.30)
>consensus
CCAAGUGUGAAACUGAAAAUCAAUGAAACUCACAAUUUGCCCAGUCAGCAAACGCCUCUUGGCGACAACUGCAACCAUUUCACACUUACAUACA_UACAUAUG____UAUGGUU
..(((((((((........................(((((.......)))))((((....))))..............)))))))))........................... (-17.07 = -17.30 +   0.23)

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 13:08:55 2006