Locus 8644

Sequence ID X_DroMel_CAF1
Location 21,785,258 – 21,785,470
Length 212
Max. P 0.953605
window14204 window14205 window14206

overview

Window 4

Location 21,785,258 – 21,785,353
Length 95
Sequences 3
Columns 95
Reading direction forward
Mean pairwise identity 94.39
Mean single sequence MFE -27.57
Consensus MFE -26.49
Energy contribution -26.60
Covariance contribution 0.11
Combinations/Pair 1.04
Mean z-score -2.14
Structure conservation index 0.96
SVM decision value 1.19
SVM RNA-class probability 0.928664
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21785258 95 + 22224390
GAGCACACAGAUUCGCCCACACACACAAUCGCACAAACUGCGGACAAACAGCAGCAAUAUAUGCGCGCUUAUGUCCUGUUUCCUUGUCUGUGGGU
..............(((((((.(((.....(((.....)))(((((...(((.(((.....)))..)))..)))))........))).))))))) ( -28.50)
>DroSec_CAF1 71148 95 + 1
AAGCACACAGAUUCGCCCACACACACAAUCGCACAAGCUGCGGGCAAACAGCAGCAAUAAAUGCGCUUUUAUGUCCUGUUUCUUUGUUUGUGGGU
..............(((((((.(((.....(((.....)))(((((((.(((.(((.....)))))).)).)))))........))).))))))) ( -27.10)
>DroSim_CAF1 50403 95 + 1
AAGCACACAGAUUCGCCCACACACACAAUCGCACAAGCUGCGGGCAAACAGCAGCAAUAAAUGCGCUUUUAUGUCCUGUUUCCUUGUUUGUGGGU
..............(((((((.(((.....(((.....)))(((((((.(((.(((.....)))))).)).)))))........))).))))))) ( -27.10)
>consensus
AAGCACACAGAUUCGCCCACACACACAAUCGCACAAGCUGCGGGCAAACAGCAGCAAUAAAUGCGCUUUUAUGUCCUGUUUCCUUGUUUGUGGGU
..............(((((((.(((.....(((.....)))(((((((.(((.(((.....)))))).)).)))))........))).))))))) (-26.49 = -26.60 +   0.11)

alignment

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secondary structure

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dotplot

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Window 5

Location 21,785,353 – 21,785,470
Length 117
Sequences 3
Columns 117
Reading direction forward
Mean pairwise identity 97.15
Mean single sequence MFE -32.67
Consensus MFE -31.40
Energy contribution -31.40
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -2.43
Structure conservation index 0.96
SVM decision value 1.43
SVM RNA-class probability 0.953605
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21785353 117 + 22224390
GUGUGUGCGAGAGUGUGUGGAAGCGCAUGUUUGCUUGUGUUUGUAGUUUUGUUCGGAAAAACAAAACUUUUGCAAAACGAGCAGGAAAAGAACGUACAGCGGACAGAGAACAAACAC
((.((((((.(((..((((....))))..)))((((((.((((((((((((((......)))))))))...)))))))))))..........))))))))................. ( -34.40)
>DroSec_CAF1 71243 117 + 1
GUGUGUGCGAUAGUGUGGGGAAGCGCAGGUUUGCUUGUGUUUGUAGUUUUGUUCGGAAAAACAAAACUUUUGCAAAACGAGCAGGAAAAGAACAUACAGCGGACAGAAAACAAACAC
.(((.(((....(((((.(.(((((((((....))))))))).).((((((((......))))))))((((((.......))))))......))))).))).)))............ ( -31.80)
>DroSim_CAF1 50498 117 + 1
GUGUGUGCGAUAGUGUGGGGAAGCGCAGGUUUGCUUGUGUUUGUAGUUUUGUUCGGAAAAACAAAACUUUUGCAAAACGAGCAGGAAAAGAACAUACAGCGGACAGAAAACAAACAC
.(((.(((....(((((.(.(((((((((....))))))))).).((((((((......))))))))((((((.......))))))......))))).))).)))............ ( -31.80)
>consensus
GUGUGUGCGAUAGUGUGGGGAAGCGCAGGUUUGCUUGUGUUUGUAGUUUUGUUCGGAAAAACAAAACUUUUGCAAAACGAGCAGGAAAAGAACAUACAGCGGACAGAAAACAAACAC
.(((.(((....((((......))))...(((((((((.((((((((((((((......)))))))))...)))))))))))))).............))).)))............ (-31.40 = -31.40 +   0.00)

alignment

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secondary structure

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dotplot

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Window 6

Location 21,785,353 – 21,785,470
Length 117
Sequences 3
Columns 117
Reading direction reverse
Mean pairwise identity 97.15
Mean single sequence MFE -23.57
Consensus MFE -23.75
Energy contribution -23.53
Covariance contribution -0.22
Combinations/Pair 1.04
Mean z-score -2.05
Structure conservation index 1.01
SVM decision value 1.30
SVM RNA-class probability 0.939518
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21785353 117 - 22224390
GUGUUUGUUCUCUGUCCGCUGUACGUUCUUUUCCUGCUCGUUUUGCAAAAGUUUUGUUUUUCCGAACAAAACUACAAACACAAGCAAACAUGCGCUUCCACACACUCUCGCACACAC
((((((((.........((...(((..(.......)..)))...))...((((((((((....))))))))))))))))))((((........)))).................... ( -24.70)
>DroSec_CAF1 71243 117 - 1
GUGUUUGUUUUCUGUCCGCUGUAUGUUCUUUUCCUGCUCGUUUUGCAAAAGUUUUGUUUUUCCGAACAAAACUACAAACACAAGCAAACCUGCGCUUCCCCACACUAUCGCACACAC
((((((((.........((...(((..(.......)..)))...))...((((((((((....))))))))))))))))))..(((....)))........................ ( -23.00)
>DroSim_CAF1 50498 117 - 1
GUGUUUGUUUUCUGUCCGCUGUAUGUUCUUUUCCUGCUCGUUUUGCAAAAGUUUUGUUUUUCCGAACAAAACUACAAACACAAGCAAACCUGCGCUUCCCCACACUAUCGCACACAC
((((((((.........((...(((..(.......)..)))...))...((((((((((....))))))))))))))))))..(((....)))........................ ( -23.00)
>consensus
GUGUUUGUUUUCUGUCCGCUGUAUGUUCUUUUCCUGCUCGUUUUGCAAAAGUUUUGUUUUUCCGAACAAAACUACAAACACAAGCAAACCUGCGCUUCCCCACACUAUCGCACACAC
((((((((.........((...(((..(.......)..)))...))...((((((((((....))))))))))))))))))..(((....)))........................ (-23.75 = -23.53 +  -0.22)

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 13:09:14 2006