Locus 5557

Sequence ID 3L_DroMel_CAF1
Location 15,247,296 – 15,247,402
Length 106
Max. P 0.999770
window8785 window8786

overview

Window 5

Location 15,247,296 – 15,247,402
Length 106
Sequences 5
Columns 117
Reading direction forward
Mean pairwise identity 89.46
Mean single sequence MFE -32.49
Consensus MFE -29.42
Energy contribution -29.22
Covariance contribution -0.20
Combinations/Pair 1.13
Mean z-score -2.76
Structure conservation index 0.91
SVM decision value 4.04
SVM RNA-class probability 0.999770
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15247296 106 + 23771897
AACUGAAGCAUUGAUGCGGAAGCGGCGAUUGCCGCUUGAGGCUCAGUGGACAGGAUACGUGUGUAUGUGAGUGACGGAUGAAUAUGUACACGGAAAAAAAAU-----------GUAA
..(((...((((((.((..(((((((....)))))))...))))))))..)))....(((((((((((..((.....))..)))))))))))..........-----------.... ( -32.70)
>DroSec_CAF1 136510 105 + 1
AACUGAAGCAUUGAUGCGGAAGCGGCGAUUGCCGCUUGAGCCUCAGUGGACAGGAUACGUGUGUAUGUGAGUGACGGGUGAAUAUGUACACGGGAAA-AAAU-----------GUAA
..(((...((((((.((..(((((((....)))))))..)).))))))..)))....(((((((((((.............))))))))))).....-....-----------.... ( -34.72)
>DroSim_CAF1 144276 106 + 1
AACUGAAGCAUUGAUGCGGAAGCGGCGAUUGCCGCUUGAGGCUCAGUGGACAGGAUACGUGUGUAUGUGAGUGACGGGUGAAUAUGUACACGGGAAAAAAAA-----------GUAA
..(((...((((((.((..(((((((....)))))))...))))))))..)))....(((((((((((.............)))))))))))..........-----------.... ( -31.52)
>DroEre_CAF1 136529 116 + 1
AACUGAAGCAUUGAUGCGGAAGCGGCGAUUGCCGCUUGAGGCUCAGUGGACAGGAUACGUGUGUAUGUGAGUGACGGGCGAGCAUGUACAGGGAAAA-AAAUAUCAAAUUAAAUAGG
..(((...((((((.((..(((((((....)))))))...))))))))..)))....(.(((((((((..((.....))..))))))))).).....-................... ( -32.70)
>DroYak_CAF1 142656 105 + 1
AACUGAAGCAUUGAUGCGGAAGCGGCGAUUGCCGCUUGAGGCUCAGUGGACAGGAUACGUGUGUAUGUGAGUGACGGGCGAGUAUGUACAGGGAACA-AAAU-----------UAAG
..(((..((((((.(((....))).))).)))((((((..((((((((.(((.(...).))).))).)))))..))))))........)))......-....-----------.... ( -30.80)
>consensus
AACUGAAGCAUUGAUGCGGAAGCGGCGAUUGCCGCUUGAGGCUCAGUGGACAGGAUACGUGUGUAUGUGAGUGACGGGUGAAUAUGUACACGGAAAA_AAAU___________GUAA
..(((...((((((.((..(((((((....)))))))...))))))))..)))....(((((((((((..((.....))..)))))))))))......................... (-29.42 = -29.22 +  -0.20)

alignment

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secondary structure

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dotplot

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Window 6

Location 15,247,296 – 15,247,402
Length 106
Sequences 5
Columns 117
Reading direction reverse
Mean pairwise identity 89.46
Mean single sequence MFE -20.77
Consensus MFE -18.26
Energy contribution -18.26
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -2.09
Structure conservation index 0.88
SVM decision value 2.31
SVM RNA-class probability 0.992126
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15247296 106 - 23771897
UUAC-----------AUUUUUUUUCCGUGUACAUAUUCAUCCGUCACUCACAUACACACGUAUCCUGUCCACUGAGCCUCAAGCGGCAAUCGCCGCUUCCGCAUCAAUGCUUCAGUU
....-----------..........(((((.........................)))))....(((..((.(((((...(((((((....)))))))..)).))).))...))).. ( -21.11)
>DroSec_CAF1 136510 105 - 1
UUAC-----------AUUU-UUUCCCGUGUACAUAUUCACCCGUCACUCACAUACACACGUAUCCUGUCCACUGAGGCUCAAGCGGCAAUCGCCGCUUCCGCAUCAAUGCUUCAGUU
....-----------....-.....(((((.........................)))))..........((((((((..(((((((....)))))))..........)))))))). ( -23.11)
>DroSim_CAF1 144276 106 - 1
UUAC-----------UUUUUUUUCCCGUGUACAUAUUCACCCGUCACUCACAUACACACGUAUCCUGUCCACUGAGCCUCAAGCGGCAAUCGCCGCUUCCGCAUCAAUGCUUCAGUU
....-----------..........(((((.........................)))))....(((..((.(((((...(((((((....)))))))..)).))).))...))).. ( -21.11)
>DroEre_CAF1 136529 116 - 1
CCUAUUUAAUUUGAUAUUU-UUUUCCCUGUACAUGCUCGCCCGUCACUCACAUACACACGUAUCCUGUCCACUGAGCCUCAAGCGGCAAUCGCCGCUUCCGCAUCAAUGCUUCAGUU
..........(((((....-..............(((((...(.((.....((((....))))..)).)...)))))...(((((((....)))))))....))))).......... ( -19.60)
>DroYak_CAF1 142656 105 - 1
CUUA-----------AUUU-UGUUCCCUGUACAUACUCGCCCGUCACUCACAUACACACGUAUCCUGUCCACUGAGCCUCAAGCGGCAAUCGCCGCUUCCGCAUCAAUGCUUCAGUU
....-----------....-...............................((((....)))).(((..((.(((((...(((((((....)))))))..)).))).))...))).. ( -18.90)
>consensus
UUAC___________AUUU_UUUUCCGUGUACAUAUUCACCCGUCACUCACAUACACACGUAUCCUGUCCACUGAGCCUCAAGCGGCAAUCGCCGCUUCCGCAUCAAUGCUUCAGUU
...................................................((((....)))).......((((((....(((((((....)))))))..(((....))))))))). (-18.26 = -18.26 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:53:16 2006