Locus 1015

Sequence ID 3L_DroMel_CAF1
Location 3,011,023 – 3,011,176
Length 153
Max. P 0.963504
window1568 window1569

overview

Window 8

Location 3,011,023 – 3,011,139
Length 116
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 82.88
Mean single sequence MFE -37.18
Consensus MFE -26.19
Energy contribution -29.80
Covariance contribution 3.61
Combinations/Pair 1.06
Mean z-score -1.96
Structure conservation index 0.70
SVM decision value 0.62
SVM RNA-class probability 0.802977
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3011023 116 + 23771897
ACCAGUUUUAAUUUGCAUUCCUUUCGCCUCGAAG----GAGCAGCGGGAUGUCCUAAUGCAGGACACCUGCAGCUUGUACUCACUUAAUCAGCAGACAGGCAAAGGUGAUGCAGGUGGCU
...(((....((((((((((((((.((.((....----)))).(((((.((((((.....))))))))))).((((((.(((.........).))))))))))))).))))))))).))) ( -41.70)
>DroSec_CAF1 45311 116 + 1
ACCAGUUUUAAUUUGCAUUCCUUUCGCCUCGAAG----GAGCAGCGGGAUGUCCUAAUGCAGGACACCUGCAGCUUGUACUCACUUAAUCAGCAGACAGGCAACGGUGAUGCAGGUGGGU
(((.......(((((((((((....((.((....----)))).(((((.((((((.....))))))))))).((((((.(((.........).))))))))...)).))))))))).))) ( -39.80)
>DroSim_CAF1 45899 116 + 1
ACCAGUUUUAAUUUGCAUUCCUUUCGCCUCGAAG----GAGCAGCGGGAUGUCCUAAUGCAGGACACCUGCAGCUUGUACUCACUUAAUCAGCAGACAGGCAAAGGUGAUGCAGGUGGUU
..........((((((((((((((.((.((....----)))).(((((.((((((.....))))))))))).((((((.(((.........).))))))))))))).))))))))).... ( -41.40)
>DroYak_CAF1 46615 114 + 1
AGCAAUUUUAAUUUGCAUUCCUUUCGCCUCGAAG----GAGCAGCGGGAUGUCCUAAUGCAGGACACCUGCAGCUUCAACUCACUUAAUCAGCAAACAGACAUGGGUGAUGCAGGUGG--
.((((.......))))........(((((((..(----((((.(((((.((((((.....))))))))))).)))))...(((((((.((........))..))))))))).))))).-- ( -39.90)
>DroAna_CAF1 42364 97 + 1
ACCACUUUUAAUUUGCAUUCCUUC---UUUGUAGGACUGAGCUGCGGGAUGUCGAACUGCAGGACACCUGCCGCUGUUACUCAUUUAAUCAGGAGACAGG--------------------
..................((((..---.....))))((((((.(((((.((((.........))))))))).)))....(((..........))).))).-------------------- ( -23.10)
>consensus
ACCAGUUUUAAUUUGCAUUCCUUUCGCCUCGAAG____GAGCAGCGGGAUGUCCUAAUGCAGGACACCUGCAGCUUGUACUCACUUAAUCAGCAGACAGGCAAAGGUGAUGCAGGUGG_U
..........((((((((..((((.((((.(.((....((((.(((((.((((((.....))))))))))).))))...))).........(....))))).))))..)))))))).... (-26.19 = -29.80 +   3.61)

alignment

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secondary structure

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dotplot

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Window 9

Location 3,011,059 – 3,011,176
Length 117
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 80.14
Mean single sequence MFE -38.36
Consensus MFE -21.18
Energy contribution -24.38
Covariance contribution 3.20
Combinations/Pair 1.10
Mean z-score -2.57
Structure conservation index 0.55
SVM decision value 1.55
SVM RNA-class probability 0.963504
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3011059 117 + 23771897
GCAGCGGGAUGUCCUAAUGCAGGACACCUGCAGCUUGUACUCACUUAAUCAGCAGACAGGCAAAGGUGAUGCAGGUGGCUGGCUGGAGGCCA---GCAACAUGCGCUUAAAAUUAAAAAC
((((((((.((((((.....))))))))))).(((((((.((((((.....((......))..))))))))))))).((((((.....))))---))....)))................ ( -45.30)
>DroSec_CAF1 45347 117 + 1
GCAGCGGGAUGUCCUAAUGCAGGACACCUGCAGCUUGUACUCACUUAAUCAGCAGACAGGCAACGGUGAUGCAGGUGGGUGGCUGGAGGCUA---GCAACAUGCGCUUAAAAUUAAAAAC
((.(((((.((((((.....))))))))))).((.(((((((((((.((((.(.....(....)).))))..)))))))).(((((...)))---)).))).)))).............. ( -41.30)
>DroSim_CAF1 45935 117 + 1
GCAGCGGGAUGUCCUAAUGCAGGACACCUGCAGCUUGUACUCACUUAAUCAGCAGACAGGCAAAGGUGAUGCAGGUGGUUGGCUGGAGGCCA---GCAACAUGCGCUUAAAAUUAAAAAC
((((((((.((((((.....))))))))))).(((((((.((((((.....((......))..))))))))))))).((((((.....))))---))....)))................ ( -42.90)
>DroYak_CAF1 46651 116 + 1
GCAGCGGGAUGUCCUAAUGCAGGACACCUGCAGCUUCAACUCACUUAAUCAGCAAACAGACAUGGGUGAUGCAGGUGG----CUGGAGAGCAGCGGCGACAUGCGCUUAAAAUUAAAAAU
...(((((.((((((.....)))))))))))(((......(((((((.((........))..))))))).(((.((.(----(((........)))).)).))))))............. ( -36.80)
>DroAna_CAF1 42401 88 + 1
GCUGCGGGAUGUCGAACUGCAGGACACCUGCCGCUGUUACUCAUUUAAUCAGGAGACAGG-----------------------------AUG---GUAACAUGCGCUUGAAAUUAAAAAC
((.(((((.((((.........))))))))).((((((((.(((((..((....))..))-----------------------------)))---)))))).)))).............. ( -25.50)
>consensus
GCAGCGGGAUGUCCUAAUGCAGGACACCUGCAGCUUGUACUCACUUAAUCAGCAGACAGGCAAAGGUGAUGCAGGUGG_UGGCUGGAGGCCA___GCAACAUGCGCUUAAAAUUAAAAAC
((.(((((.((((((.....))))))))))).(((((((.((((((..((........))...)))))))))))))...................((.....)))).............. (-21.18 = -24.38 +   3.20)

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 09:56:54 2006