Locus 2989

Sequence ID X_DroMel_CAF1
Location 7,958,601 – 7,958,695
Length 94
Max. P 0.699954
window4902 window4903

overview

Window 2

Location 7,958,601 – 7,958,695
Length 94
Sequences 6
Columns 101
Reading direction forward
Mean pairwise identity 81.63
Mean single sequence MFE -23.03
Consensus MFE -15.00
Energy contribution -15.17
Covariance contribution 0.17
Combinations/Pair 1.27
Mean z-score -1.85
Structure conservation index 0.65
SVM decision value 0.30
SVM RNA-class probability 0.679060
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7958601 94 + 22224390
AAGUCAUGGUGCGAU--UAUAAUGGCAAAUGUCACAACAAUUGCAAAAGGCAUUGAAAAACUUUGAUUGUUUUUCGCACGCC-----GCUAUCAAACAGCA
.........((((((--(....((((....))))....)))))))...(((..((((((((.......))))))))...)))-----(((.......))). ( -22.50)
>DroSec_CAF1 12346 96 + 1
AAGUCAUGGUGCGAUAAUAUAAUGGCAAAUGUCACAACAAUUGCAACGGGCAUUGAAAAGCUUUGAUUGCUUUUCGCACGCC-----GCUAUCGAACAGCA
........((.(((((........((((.(((....))).))))....(((..((((((((.......))))))))...)))-----..))))).)).... ( -24.60)
>DroSim_CAF1 8622 96 + 1
AAGUCAUGGUGCGAUAAUAUAAUGGCAAAUGUCACAACAAUUGCAAAGGGCAUUGAAAAGCUUUGAUUGCUUUUCGCACGCC-----GCUAUCGAACAGCA
........((.(((((........((((.(((....))).))))....(((..((((((((.......))))))))...)))-----..))))).)).... ( -24.60)
>DroEre_CAF1 9697 94 + 1
AAGUCAUGGUGCGAUAA--UAAUGGCAAAUGUCGCAACAACUGCGAAAGGCAUUGAAAAGCUUUGAUUGCUUUUCGCACGCC-----GCUAUCAAACAACA
.......(((((((((.--..........))))))......((((((((((((..((....))..).))))))))))).)))-----.............. ( -25.80)
>DroYak_CAF1 10021 76 + 1
AAGUCAUGGUGCGAUAA--UAAUGGCAA------------------AAGGCAUUGAAAGGCAUUGAUUGCUUUUCGCACGCC-----GCUAUCAAACAGCA
..(((((.((......)--).)))))..------------------..(((..(((((((((.....)))))))))...)))-----(((.......))). ( -21.60)
>DroAna_CAF1 14691 98 + 1
AAGUCAUGGUGCGAUAA--UAAUUGCAAAUGUCACAACAACAACAACA-ACACUGAAGAGCUCUGAUUGCUUUUCGCACGCUGGCCUGAUAUCGAAAAACU
..((((..((((((((.--..........))))...............-.....(((((((.......)))))))))))..))))................ ( -19.10)
>consensus
AAGUCAUGGUGCGAUAA__UAAUGGCAAAUGUCACAACAAUUGCAAAAGGCAUUGAAAAGCUUUGAUUGCUUUUCGCACGCC_____GCUAUCAAACAGCA
........((((..........((((....))))....................(((((((.......)))))))))))...................... (-15.00 = -15.17 +   0.17)

alignment

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secondary structure

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dotplot

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Window 3

Location 7,958,601 – 7,958,695
Length 94
Sequences 6
Columns 101
Reading direction reverse
Mean pairwise identity 81.63
Mean single sequence MFE -23.17
Consensus MFE -17.64
Energy contribution -18.35
Covariance contribution 0.71
Combinations/Pair 1.23
Mean z-score -1.54
Structure conservation index 0.76
SVM decision value 0.35
SVM RNA-class probability 0.699954
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7958601 94 - 22224390
UGCUGUUUGAUAGC-----GGCGUGCGAAAAACAAUCAAAGUUUUUCAAUGCCUUUUGCAAUUGUUGUGACAUUUGCCAUUAUA--AUCGCACCAUGACUU
.((((((....)))-----)))(((((((((((.......)))))))..........((((.(((....))).)))).......--...))))........ ( -24.10)
>DroSec_CAF1 12346 96 - 1
UGCUGUUCGAUAGC-----GGCGUGCGAAAAGCAAUCAAAGCUUUUCAAUGCCCGUUGCAAUUGUUGUGACAUUUGCCAUUAUAUUAUCGCACCAUGACUU
....((.((((((.-----(((((..(((((((.......))))))).)))))....((((.(((....))).)))).......)))))).))........ ( -26.00)
>DroSim_CAF1 8622 96 - 1
UGCUGUUCGAUAGC-----GGCGUGCGAAAAGCAAUCAAAGCUUUUCAAUGCCCUUUGCAAUUGUUGUGACAUUUGCCAUUAUAUUAUCGCACCAUGACUU
....((.((((((.-----(((((..(((((((.......))))))).)))))....((((.(((....))).)))).......)))))).))........ ( -26.00)
>DroEre_CAF1 9697 94 - 1
UGUUGUUUGAUAGC-----GGCGUGCGAAAAGCAAUCAAAGCUUUUCAAUGCCUUUCGCAGUUGUUGCGACAUUUGCCAUUA--UUAUCGCACCAUGACUU
(((.((.((((.((-----(((((..(((((((.......))))))).)))))..((((((...)))))).....)).))))--..)).)))......... ( -25.10)
>DroYak_CAF1 10021 76 - 1
UGCUGUUUGAUAGC-----GGCGUGCGAAAAGCAAUCAAUGCCUUUCAAUGCCUU------------------UUGCCAUUA--UUAUCGCACCAUGACUU
.((((((....)))-----)))((((((((.(((.....))).))))((((.(..------------------..).)))).--.....))))........ ( -19.00)
>DroAna_CAF1 14691 98 - 1
AGUUUUUCGAUAUCAGGCCAGCGUGCGAAAAGCAAUCAGAGCUCUUCAGUGU-UGUUGUUGUUGUUGUGACAUUUGCAAUUA--UUAUCGCACCAUGACUU
..............(((.((..((((((..((((((.(.(((........))-).).))))))((((..(...)..))))..--...))))))..)).))) ( -18.80)
>consensus
UGCUGUUCGAUAGC_____GGCGUGCGAAAAGCAAUCAAAGCUUUUCAAUGCCUUUUGCAAUUGUUGUGACAUUUGCCAUUA__UUAUCGCACCAUGACUU
....((.(((((.......(((((..(((((((.......))))))).)))))....((((.(((....))).))))........))))).))........ (-17.64 = -18.35 +   0.71)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:48:27 2006