Locus 5099

Sequence ID 3R_DroMel_CAF1
Location 13,439,309 – 13,439,399
Length 90
Max. P 0.596874
window8309 window8310

overview

Window 9

Location 13,439,309 – 13,439,399
Length 90
Sequences 6
Columns 96
Reading direction forward
Mean pairwise identity 83.13
Mean single sequence MFE -16.53
Consensus MFE -12.00
Energy contribution -12.17
Covariance contribution 0.17
Combinations/Pair 1.00
Mean z-score -1.70
Structure conservation index 0.73
SVM decision value 0.13
SVM RNA-class probability 0.596874
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13439309 90 + 27905053
U--UUUU--ACAUUUCUUUUCUCAUGCC-CAACUU-UACUCUUGUUGCUCUCAAAAAACCUGAAAUUUUCAGGGUCAAAUCGCAUGCAUAAGGCAA
.--....--......((((...(((((.-((((..-.......))))...........(((((.....)))))........)))))...))))... ( -15.20)
>DroPse_CAF1 20812 91 + 1
AUUUUGU--UCAUUUCUUUUCUCAUGCC-CAAUUU--UGUGUGUGUGCUCUCAAAAAACCUGAAAUUUUCAGGGGCAAAUCAUGUGCAUAAGGCAA
.......--...............((((-.....(--((((..((((...........(((((.....))))).......))))..))))))))). ( -17.57)
>DroSim_CAF1 8622 90 + 1
U--UUUU--ACAUUUCUUUUCUCAUGCC-CAACUU-UACCCUUGUUGCUCUCAAAAAACCUGAAAUUUUCAGGGGCAAAUCGCAUGCAUAAGGCAA
.--....--...............((((-((((..-.......))))...........(((((.....))))))))).......(((.....))). ( -15.40)
>DroYak_CAF1 6688 90 + 1
U--UUUU--ACAUUUCUUUUCUCAUGCC-CAACUU-UACUCUUGUUGCUCUCAAAAAACCUGAAAUUUUCAGGGGCAAAUCGCAUGCAUAAGGCAU
.--....--...............((((-((((..-.......))))...........(((((.....)))))))))......((((.....)))) ( -15.70)
>DroAna_CAF1 8028 93 + 1
U--UUUUUCCCAUUUCUUUUCUCAUGCC-CAAUUUUUUCUGUUUUUGCUCUCAAAAAACCUGAAAUUUUCAGGGGCAAAUCAUGUGCAUAAGGCAA
.--.....................((((-(..........((((((.......))))))((((.....))))))))).......(((.....))). ( -16.60)
>DroPer_CAF1 14279 91 + 1
NNNNNNN--NNNNNNNNUUUCUCAUGCCCCAAUUU--UGUGUGUAUGCUCUCAAA-AACCUGAAAUUUUCAGGGGCAAAUCAUGUGCAUAAGGCAA
.......--...............((((......(--((((..((((........-..(((((.....))))).......))))..))))))))). ( -18.73)
>consensus
U__UUUU__ACAUUUCUUUUCUCAUGCC_CAACUU_UACUCUUGUUGCUCUCAAAAAACCUGAAAUUUUCAGGGGCAAAUCACAUGCAUAAGGCAA
........................((((..............................(((((.....))))).(((.......)))....)))). (-12.00 = -12.17 +   0.17)

alignment

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secondary structure

Postscript

dotplot

Postscript

Window 0

Location 13,439,309 – 13,439,399
Length 90
Sequences 6
Columns 96
Reading direction reverse
Mean pairwise identity 83.13
Mean single sequence MFE -18.57
Consensus MFE -15.88
Energy contribution -15.38
Covariance contribution -0.50
Combinations/Pair 1.10
Mean z-score -1.33
Structure conservation index 0.86
SVM decision value 0.00
SVM RNA-class probability 0.535884
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13439309 90 - 27905053
UUGCCUUAUGCAUGCGAUUUGACCCUGAAAAUUUCAGGUUUUUUGAGAGCAACAAGAGUA-AAGUUG-GGCAUGAGAAAAGAAAUGU--AAAA--A
....(((((((...((((((.(((((((.....)))))..(((((.......))))))).-))))))-.)))))))...........--....--. ( -19.40)
>DroPse_CAF1 20812 91 - 1
UUGCCUUAUGCACAUGAUUUGCCCCUGAAAAUUUCAGGUUUUUUGAGAGCACACACACA--AAAUUG-GGCAUGAGAAAAGAAAUGA--ACAAAAU
....(((((((.((.........(((((.....)))))..(((((.(........).))--))).))-.)))))))...........--....... ( -15.50)
>DroSim_CAF1 8622 90 - 1
UUGCCUUAUGCAUGCGAUUUGCCCCUGAAAAUUUCAGGUUUUUUGAGAGCAACAAGGGUA-AAGUUG-GGCAUGAGAAAAGAAAUGU--AAAA--A
....(((((((...((((((..((((.....((((((.....))))))......))))..-))))))-.)))))))...........--....--. ( -23.30)
>DroYak_CAF1 6688 90 - 1
AUGCCUUAUGCAUGCGAUUUGCCCCUGAAAAUUUCAGGUUUUUUGAGAGCAACAAGAGUA-AAGUUG-GGCAUGAGAAAAGAAAUGU--AAAA--A
....(((((((...((((((...(((((.....))))).((((((.......))))))..-))))))-.)))))))...........--....--. ( -18.80)
>DroAna_CAF1 8028 93 - 1
UUGCCUUAUGCACAUGAUUUGCCCCUGAAAAUUUCAGGUUUUUUGAGAGCAAAAACAGAAAAAAUUG-GGCAUGAGAAAAGAAAUGGGAAAAA--A
....(((((((...((((((...(((((.....))))).((((((....))))))......))))))-.))))))).................--. ( -18.10)
>DroPer_CAF1 14279 91 - 1
UUGCCUUAUGCACAUGAUUUGCCCCUGAAAAUUUCAGGUU-UUUGAGAGCAUACACACA--AAAUUGGGGCAUGAGAAANNNNNNNN--NNNNNNN
....(((((((.((.....))(((((((.....))))(((-(....)))).........--.....))))))))))...........--....... ( -16.30)
>consensus
UUGCCUUAUGCACACGAUUUGCCCCUGAAAAUUUCAGGUUUUUUGAGAGCAAAAACAGAA_AAAUUG_GGCAUGAGAAAAGAAAUGU__AAAA__A
....(((((((...((((((...(((((.....))))).....((....))..........))))))..))))))).................... (-15.88 = -15.38 +  -0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:46:07 2006