Locus 6749

Sequence ID X_DroMel_CAF1
Location 16,765,540 – 16,765,648
Length 108
Max. P 0.575083
window11040 window11041

overview

Window 0

Location 16,765,540 – 16,765,648
Length 108
Sequences 4
Columns 117
Reading direction forward
Mean pairwise identity 87.01
Mean single sequence MFE -22.89
Consensus MFE -15.65
Energy contribution -16.40
Covariance contribution 0.75
Combinations/Pair 1.00
Mean z-score -1.45
Structure conservation index 0.68
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16765540 108 + 22224390
UUUUCACCUACUUGCCAUAUGCUAGCCCAUAUUUUU----UUUUUUGCAUGCA----UUGCACUUGCGGUGUGGCAACUUCCAUUGAUAGCAGAAAAUCCCUUGCAGCUUUUUAA-C
...........(((((..((((..............----......))))(((----((((....))))))))))))............((((........))))..........-. ( -19.45)
>DroSec_CAF1 3049 113 + 1
UUUUCACCUACUUGCCAUAUGCUAGCCCAUAUUUUU----UUUUUUGCAAGCAUUGAUUGCACUUGCGGUGUGGCAACUUGCAUUGAUAGCAGAAAAUCCCUUGCAGCUUUUUAACC
...........((((((((((((.((..........----......)).)))))..(((((....)))))))))))).(((((..(((........)))...))))).......... ( -21.59)
>DroSim_CAF1 2955 117 + 1
UUUUCACCUACUUGCCAUAUGCUAGCCCAUAUUUUUUUUUUUUUUUGCAAGCAUUGAUUGCACUUGCGGUGUGGCAACUUGCAUUGAUAGCAGAAAAUCCCUUGCAGCUUUUUAACC
....................(((.((....(((((((.((.((..((((((..(((.(..(((.....)))..))))))))))..)).)).))))))).....)))))......... ( -21.80)
>DroEre_CAF1 6144 104 + 1
UUCUCACCUACUUGCCAUAAGCUAGUCCAUAUUUAU--------UUGCACACA----UUGCACUUGCGGUGUGGCAACUGCAAGCGAUAGCAGUAAAUCCCUUGCAGCCUAUUAA-C
.........(((.((.....)).)))..........--------((((.((((----((((....))))))))))))(((((((.(((........))).)))))))........-. ( -28.70)
>consensus
UUUUCACCUACUUGCCAUAUGCUAGCCCAUAUUUUU____UUUUUUGCAAGCA____UUGCACUUGCGGUGUGGCAACUUCCAUUGAUAGCAGAAAAUCCCUUGCAGCUUUUUAA_C
...........(((((((((((.((....................(((((.......))))))).)).)))))))))............((((........))))............ (-15.65 = -16.40 +   0.75)

alignment

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secondary structure

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dotplot

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Window 1

Location 16,765,540 – 16,765,648
Length 108
Sequences 4
Columns 117
Reading direction reverse
Mean pairwise identity 87.01
Mean single sequence MFE -26.55
Consensus MFE -17.90
Energy contribution -17.77
Covariance contribution -0.12
Combinations/Pair 1.08
Mean z-score -1.66
Structure conservation index 0.67
SVM decision value 0.08
SVM RNA-class probability 0.575083
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16765540 108 - 22224390
G-UUAAAAAGCUGCAAGGGAUUUUCUGCUAUCAAUGGAAGUUGCCACACCGCAAGUGCAA----UGCAUGCAAAAAA----AAAAAUAUGGGCUAGCAUAUGGCAAGUAGGUGAAAA
.-..............(((((((((..........))))))).)).(((((((.((....----.)).)))......----.....(((..((((.....))))..))))))).... ( -21.20)
>DroSec_CAF1 3049 113 - 1
GGUUAAAAAGCUGCAAGGGAUUUUCUGCUAUCAAUGCAAGUUGCCACACCGCAAGUGCAAUCAAUGCUUGCAAAAAA----AAAAAUAUGGGCUAGCAUAUGGCAAGUAGGUGAAAA
(((.....(((((((...(((........)))..))).))))))).((((((((((.........))))))......----.....(((..((((.....))))..))))))).... ( -27.40)
>DroSim_CAF1 2955 117 - 1
GGUUAAAAAGCUGCAAGGGAUUUUCUGCUAUCAAUGCAAGUUGCCACACCGCAAGUGCAAUCAAUGCUUGCAAAAAAAAAAAAAAAUAUGGGCUAGCAUAUGGCAAGUAGGUGAAAA
(((.....(((((((...(((........)))..))).))))))).((((((((((.........))))))...............(((..((((.....))))..))))))).... ( -27.40)
>DroEre_CAF1 6144 104 - 1
G-UUAAUAGGCUGCAAGGGAUUUACUGCUAUCGCUUGCAGUUGCCACACCGCAAGUGCAA----UGUGUGCAA--------AUAAAUAUGGACUAGCUUAUGGCAAGUAGGUGAGAA
.-......(((((((((.(((........))).)))))))))((((((..((....))..----)))).))..--------...........((.((((((.....)))))).)).. ( -30.20)
>consensus
G_UUAAAAAGCUGCAAGGGAUUUUCUGCUAUCAAUGCAAGUUGCCACACCGCAAGUGCAA____UGCUUGCAAAAAA____AAAAAUAUGGGCUAGCAUAUGGCAAGUAGGUGAAAA
........(.((((....(((........)))........(((((.....(((...(((.....))).)))..............(((((......)))))))))))))).)..... (-17.90 = -17.77 +  -0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:21:52 2006