Locus 3786

Sequence ID X_DroMel_CAF1
Location 10,026,835 – 10,026,966
Length 131
Max. P 0.944035
window6219 window6220

overview

Window 9

Location 10,026,835 – 10,026,950
Length 115
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 84.57
Mean single sequence MFE -24.86
Consensus MFE -16.24
Energy contribution -17.20
Covariance contribution 0.96
Combinations/Pair 1.19
Mean z-score -1.96
Structure conservation index 0.65
SVM decision value 0.24
SVM RNA-class probability 0.647240
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10026835 115 + 22224390
CUUUUUAUUUUUACUACCUAUAUUUAUCGCAUUUUGAAACAAUUUUUUGUUGUUUGCCCUUUU--GCAAAUAUGUUGCAAUUUCGGCAUCAUAAAAAUGCAAAUGGGUCGACGUGUG---
...........................(((((.((((((((((.....)))))))((((.(((--(((..((((.(((.......))).))))....)))))).))))))).)))))--- ( -26.60)
>DroAna_CAF1 24784 107 + 1
CUCUUUGUU--------AUAUAUUUAUCGUAUUUUGAAACAAUUU-UUGUUGUU----CUUUCGGGGGAAUAUGUUGCAAUUUCAGCAUCAUAAAAAUGCAAAUGUCCUGCCGCGUGUGU
....((((.--------((((((((.(((......(((.((((..-..))))))----)...)))..)))))))).)))).....((((.......))))..((((......)))).... ( -16.30)
>DroSim_CAF1 4191 112 + 1
CUUUUUAUU-UUACUCCCUAUAUUUAUAGCAUU-UGAAACAAUUUUUUGUUGUUGGCCCUU-U--GCA-AUAUGUUGCAAUUUCAGCAUCAUAAAAAUGCAAAUGGGUCGACGUGUGU--
.........-..................((((.-...(((((....)))))((((((((((-(--(((-.((((.(((.......))).))))....)))))).))))))))))))..-- ( -28.70)
>DroEre_CAF1 34355 113 + 1
CUUUUUAUUUUUACUCCCUAUACUUAUCACAUUUUGAAACAAUU--UUGUUGUUGGCCCUUUU--GCGAAUAUGUUGCAAUUUCGGCAUCAUAAAAAUGCAAAUGGAUCGGCGUGUG---
...........................(((((.....((((...--.))))((((..((.(((--(((..((((.(((.......))).))))....)))))).))..)))))))))--- ( -22.30)
>DroYak_CAF1 31489 116 + 1
CUUUUUAUUUUCACUCCCUAUAUUUAUCGCAUUUUGAAACAAUUUUUUGUUGUUGGCCCUUUU--GCGAAUAUGUUGCAAUUUCGGCAUCAUAAAAAUGCAAAUGGGUCGACGUGUGU--
...........................(((((.....(((((....)))))((((((((.(((--(((..((((.(((.......))).))))....)))))).))))))))))))).-- ( -30.40)
>consensus
CUUUUUAUUUUUACUCCCUAUAUUUAUCGCAUUUUGAAACAAUUUUUUGUUGUUGGCCCUUUU__GCGAAUAUGUUGCAAUUUCGGCAUCAUAAAAAUGCAAAUGGGUCGACGUGUGU__
...........................(((.......(((((....)))))((((((((......(((..((((.(((.......))).))))....)))....)))))))))))..... (-16.24 = -17.20 +   0.96)

alignment

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secondary structure

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dotplot

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Window 0

Location 10,026,875 – 10,026,966
Length 91
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 75.93
Mean single sequence MFE -17.74
Consensus MFE -6.80
Energy contribution -7.12
Covariance contribution 0.32
Combinations/Pair 1.15
Mean z-score -2.21
Structure conservation index 0.38
SVM decision value 1.34
SVM RNA-class probability 0.944035
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10026875 91 - 22224390
CUCAAACUGACUCACA---------------------------CACACGUCGACCCAUUUGCAUUUUUAUGAUGCCGAAAUUGCAACAUAUUUGC--AAAAGGGCAAACAACAAAAAAUU
........(((.....---------------------------.....)))(.(((.((((((....((((.(((.......))).))))..)))--))).))))............... ( -18.50)
>DroAna_CAF1 24816 97 - 1
CUGCCACACACACACA------------------CACAGGACACACGCGGCAGGACAUUUGCAUUUUUAUGAUGCUGAAAUUGCAACAUAUUCCCCCGAAAG----AACAACAA-AAAUU
(((((.(.........------------------............).))))).....(((((.(((((......))))).)))))..........(....)----........-..... ( -14.30)
>DroSim_CAF1 4229 93 - 1
CUCAAACUGGCUCACA--------------------CAU---ACACACGUCGACCCAUUUGCAUUUUUAUGAUGCUGAAAUUGCAACAUAU-UGC--A-AAGGGCCAACAACAAAAAAUU
.......((((((..(--------------------(..---......)).......((((((....((((.(((.......))).)))).-)))--)-))))))))............. ( -19.80)
>DroEre_CAF1 34395 89 - 1
CUCAAACUGGCUCACA---------------------------CACACGCCGAUCCAUUUGCAUUUUUAUGAUGCCGAAAUUGCAACAUAUUCGC--AAAAGGGCCAACAACAA--AAUU
........(((.....---------------------------.....)))(..((.(((((.....((((.(((.......))).))))...))--))).))..)........--.... ( -16.90)
>DroYak_CAF1 31529 115 - 1
CUCAAACUUGCACACACUCGCCCAUACUCGCACAUACAG---ACACACGUCGACCCAUUUGCAUUUUUAUGAUGCCGAAAUUGCAACAUAUUCGC--AAAAGGGCCAACAACAAAAAAUU
...................((((...............(---((....)))......(((((.....((((.(((.......))).))))...))--))).))))............... ( -19.20)
>consensus
CUCAAACUGGCUCACA____________________CA____ACACACGUCGACCCAUUUGCAUUUUUAUGAUGCCGAAAUUGCAACAUAUUCGC__AAAAGGGCCAACAACAAAAAAUU
.....................................................(((.(((.......((((.(((.......))).)))).......))).)))................ ( -6.80 =  -7.12 +   0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:08:29 2006