Locus 7593

Sequence ID 3L_DroMel_CAF1
Location 20,430,419 – 20,430,607
Length 188
Max. P 0.711511
window12336 window12337 window12338

overview

Window 6

Location 20,430,419 – 20,430,527
Length 108
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 78.60
Mean single sequence MFE -35.00
Consensus MFE -24.34
Energy contribution -25.95
Covariance contribution 1.61
Combinations/Pair 1.17
Mean z-score -1.23
Structure conservation index 0.70
SVM decision value 0.25
SVM RNA-class probability 0.655139
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20430419 108 + 23771897
UUAUU------------CUCUGCAGACCUAAACGCUAUCAGUUGAGCGAGCUGGUCGACUGGUUCCACCGCCUGAUGCGCAAGGACCAGAAGCGCUGGGGCUACAUGCGCUACGACAUGC
.....------------....(((((((....((((........))))....))))..(((((((...(((.....)))...))))))).(((((((......)).)))))......))) ( -34.50)
>DroVir_CAF1 36820 120 + 1
UAAUUCAACUUAUCUAAAUUUGCAGUCCCAAGCGCUAUCAGCUGAGCGAGCUGGUCGACUGGUUCCAUCGCCUAAUGCGCAAGGACCAGAAGCGUUGGGGCUAUCAGCGUUACGAUAUGC
..........(((((((..(((.((((((((.(((((((((((.....)))))))...(((((((...(((.....)))...))))))).))))))))))))..)))..))).))))... ( -41.60)
>DroGri_CAF1 37590 107 + 1
-------------UUAAAUUUACAGUCCAAAACGUUAUCAGUUGAGCGAGCUGGUCGACUGGUUCCAUCGGCUGAUGCGCAAGGAUCAGAAACGUUGGGGCUAUCAGCGUUACGAUAUGC
-------------...........(((...((((((..(((((((.(.....).)))))))((((((.((.(((((.(....).)))))...)).))))))....))))))..))).... ( -35.50)
>DroWil_CAF1 42184 108 + 1
AUUUC------------UAUUGCAGGCCCAAACGCUAUCAAUUAAGUGAGCUAGUCGAUUGGUUCCAUCGCCUUAUGCGCAAAGAUCAGAAACGUUGGGGCUAUCAGCGUUAUGAUAUGC
...((------------(.((((.((.((((.((((((((......)))..))).)).))))..))...((.....)))))))))(((..((((((((.....)))))))).)))..... ( -25.40)
>DroMoj_CAF1 36317 108 + 1
UAAUU------------AAUUACAGACCCAAGCGAUAUCAGCUGAGCGAGUUGGUUGACUGGUUCCAUCGCCUGAUGCGCAAGGAUCAAAAGGGUUGGGGCUACCAGCGCUAUGAUAUGC
.....------------..............((.((((((....(((..((((((.....(((((((.(.((((((.(....).)))...)))).)))))))))))))))).)))))))) ( -32.10)
>DroAna_CAF1 33046 108 + 1
CAUUC------------CAUUUCAGGCCCAAGCGCUAUCAGCUUAGCGAACUGGUGGACUGGUUCCAUCGCCUGAUGCGCAAGGAUCAGAAGCGCUGGGGCUACAUGCGCUACGACAUGC
.....------------.......(((((.((((((....((...(.((((..(....)..)))))...))(((((.(....).))))).)))))).))))).((((((...)).)))). ( -40.90)
>consensus
UAAUU____________AAUUGCAGACCCAAACGCUAUCAGCUGAGCGAGCUGGUCGACUGGUUCCAUCGCCUGAUGCGCAAGGAUCAGAAGCGUUGGGGCUACCAGCGCUACGAUAUGC
..............................(((((.(((((((.....)))))))....((((((((.((((((((.(....).)))))..))).))))))))...)))))......... (-24.34 = -25.95 +   1.61)

alignment

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secondary structure

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dotplot

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Window 7

Location 20,430,447 – 20,430,567
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 82.72
Mean single sequence MFE -45.75
Consensus MFE -30.95
Energy contribution -29.98
Covariance contribution -0.97
Combinations/Pair 1.43
Mean z-score -2.18
Structure conservation index 0.68
SVM decision value 0.38
SVM RNA-class probability 0.711511
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20430447 120 + 23771897
GUUGAGCGAGCUGGUCGACUGGUUCCACCGCCUGAUGCGCAAGGACCAGAAGCGCUGGGGCUACAUGCGCUACGACAUGCGCUGGGACCCCACCUUCCUGCUGAAAGCCAAGCUGAACAG
(((.(((..(((..((..(((((((...(((.....)))...))))))).((((.(((((((.((.((((........)))))))).)))))......)))))).)))...))).))).. ( -44.40)
>DroVir_CAF1 36860 120 + 1
GCUGAGCGAGCUGGUCGACUGGUUCCAUCGCCUAAUGCGCAAGGACCAGAAGCGUUGGGGCUAUCAGCGUUACGAUAUGCGCUGGGACCCCACUUUCAAAUUGAAGGUUAAACUCACCAA
(((.....)))((((.(((((((((...(((.....)))...)))))))....(((((((...(((((((........)))))))..))))((((((.....))))))..))))))))). ( -42.80)
>DroGri_CAF1 37617 120 + 1
GUUGAGCGAGCUGGUCGACUGGUUCCAUCGGCUGAUGCGCAAGGAUCAGAAACGUUGGGGCUAUCAGCGUUACGAUAUGCGCUGGGAUCCCACCUUCAAGUUGAAGGCUCGUUUGACCAG
((..((((((((..(((((((((((((.((.(((((.(....).)))))...)).))))))).(((((((........))))))).............)))))).))))))))..))... ( -56.20)
>DroWil_CAF1 42212 120 + 1
AUUAAGUGAGCUAGUCGAUUGGUUCCAUCGCCUUAUGCGCAAAGAUCAGAAACGUUGGGGCUAUCAGCGUUAUGAUAUGCGCUGGGACCCUACUUUCCUGCUUAAGGCUAAAUUUACCCA
.....(.(((((((....))))))))...((((((.(((((...((((..((((((((.....)))))))).)))).))))).((((........))))...))))))............ ( -36.40)
>DroMoj_CAF1 36345 120 + 1
GCUGAGCGAGUUGGUUGACUGGUUCCAUCGCCUGAUGCGCAAGGAUCAAAAGGGUUGGGGCUACCAGCGCUAUGAUAUGCGCUGGGACCCCACUUUCAAGCUAAAGGUGAAACUCACCAA
(((((((.((((....)))).)))).......((((.(....).))))..(((((.((((...(((((((........)))))))..)))))))))..)))....((((.....)))).. ( -48.20)
>DroAna_CAF1 33074 120 + 1
GCUUAGCGAACUGGUGGACUGGUUCCAUCGCCUGAUGCGCAAGGAUCAGAAGCGCUGGGGCUACAUGCGCUACGACAUGCGCUGGGAUCCCACCUUCCUGCUUAAGGCCAAGCUCACCAA
((((((((....(((((..((((((((.((((((((.(....).)))))..))).))))))))((.((((........)))))).....)))))....))))..))))............ ( -46.50)
>consensus
GCUGAGCGAGCUGGUCGACUGGUUCCAUCGCCUGAUGCGCAAGGAUCAGAAGCGUUGGGGCUACCAGCGCUACGAUAUGCGCUGGGACCCCACCUUCAAGCUGAAGGCUAAACUCACCAA
(((.(((.....(((...(((((((...(((.....)))...))))))).......((((...(((((((........)))))))..))))))).....)))...)))............ (-30.95 = -29.98 +  -0.97)

alignment

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secondary structure

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dotplot

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Window 8

Location 20,430,487 – 20,430,607
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 78.67
Mean single sequence MFE -43.41
Consensus MFE -24.91
Energy contribution -24.92
Covariance contribution 0.00
Combinations/Pair 1.38
Mean z-score -1.79
Structure conservation index 0.57
SVM decision value 0.35
SVM RNA-class probability 0.699082
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20430487 120 + 23771897
AAGGACCAGAAGCGCUGGGGCUACAUGCGCUACGACAUGCGCUGGGACCCCACCUUCCUGCUGAAAGCCAAGCUGAACAGCUUCAUCUGCCCCGGCACCCCGAUUGGCGGUCUGCAUCCC
..(((((.((((((.(((((((.((.((((........)))))))).))))).)(((..(((........))).)))..)))))....(((.(((....)))...))))))))....... ( -43.60)
>DroVir_CAF1 36900 120 + 1
AAGGACCAGAAGCGUUGGGGCUAUCAGCGUUACGAUAUGCGCUGGGACCCCACUUUCAAAUUGAAGGUUAAACUCACCAACUUGAUUUGCCCCGGUGCACCCAUUGGUGGACUGCAUCUA
.......(((.((...(((((.((((((((........))))(((((....((((((.....)))))).....)).)))...))))..)))))(((.((((....)))).))))).))). ( -40.20)
>DroGri_CAF1 37657 120 + 1
AAGGAUCAGAAACGUUGGGGCUAUCAGCGUUACGAUAUGCGCUGGGAUCCCACCUUCAAGUUGAAGGCUCGUUUGACCAGUCUGAUUUGCCCCGGAGCGCCCGUUGGUGGACUGCAUCUG
..(((((((.....(((((((.((((((((......))))(((((.......(((((.....))))).........))))).))))..)))))))..((((....))))..))).)))). ( -40.29)
>DroWil_CAF1 42252 120 + 1
AAAGAUCAGAAACGUUGGGGCUAUCAGCGUUAUGAUAUGCGCUGGGACCCUACUUUCCUGCUUAAGGCUAAAUUUACCCAAUGGAUUUGCCCAGGAGCCCCGGUUGCUGGUCUGCAUCCU
..(((((((.(((..((((((..(((((((........)))))))..........(((((.....(((.(((((((.....)))))))))))))))))))))))).)))))))....... ( -43.70)
>DroMoj_CAF1 36385 120 + 1
AAGGAUCAAAAGGGUUGGGGCUACCAGCGCUAUGAUAUGCGCUGGGACCCCACUUUCAAGCUAAAGGUGAAACUCACCAACUUGAUUUGCCCUGGUGCCCCCAUUGGUGGACUGCAUCUG
..........((((((((((...(((((((........)))))))..)))))...(((((.....((((.....))))..)))))...)))))(((((..(((....)))...))))).. ( -46.90)
>DroAna_CAF1 33114 120 + 1
AAGGAUCAGAAGCGCUGGGGCUACAUGCGCUACGACAUGCGCUGGGAUCCCACCUUCCUGCUUAAGGCCAAGCUCACCAACUGGAUCUGUCCCGGCACCCCUGUCGGCGGCCUGCAUCCA
..(((((((....((((((((..((.((((........))))))((((((.........((((......)))).........)))))))))))))).((((....)).)).))).)))). ( -45.77)
>consensus
AAGGAUCAGAAGCGUUGGGGCUACCAGCGCUACGAUAUGCGCUGGGACCCCACCUUCAAGCUGAAGGCUAAACUCACCAACUUGAUUUGCCCCGGAGCCCCCAUUGGUGGACUGCAUCCA
..(((((((....((((((((..(((((((........)))))))..............((.....))....................))))))))...((.......)).))).)))). (-24.91 = -24.92 +   0.00)

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 12:51:07 2006