Locus 5602

Sequence ID 2L_DroMel_CAF1
Location 15,877,990 – 15,878,132
Length 142
Max. P 0.999874
window8898 window8899 window8900

overview

Window 8

Location 15,877,990 – 15,878,092
Length 102
Sequences 5
Columns 102
Reading direction reverse
Mean pairwise identity 94.61
Mean single sequence MFE -35.18
Consensus MFE -31.18
Energy contribution -31.46
Covariance contribution 0.28
Combinations/Pair 1.06
Mean z-score -3.22
Structure conservation index 0.89
SVM decision value 4.33
SVM RNA-class probability 0.999874
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15877990 102 - 22407834
AAUUUGCAAUGGAUUUUGGGGGCGAAGAGCUGGAAAACUUAAUUAGCCAGCCGCAGUCAGAUAUCCAAUUGCGAUGGUGAUUGUUCCUGAAACCGAGGCAAA
..(((((..(((.(((..(((((((...(((((..((.....))..)))))((((((..(....)..)))))).......)))))))..))))))..))))) ( -33.90)
>DroSec_CAF1 51491 102 - 1
AAUUUGCACUGGAUUUUGGGGGCGAAGAGCUGGAAAACUUAAUUACCCAGCCGCAGUCCGAUAUCCAAUUGGGAUGGUGAUUGUUCCUGAAACCGAGGCAAA
..(((((..(((.(((..(((((((...(((((.............)))))(((..((((((.....))))))...))).)))))))..))))))..))))) ( -35.72)
>DroSim_CAF1 51560 102 - 1
AAUUUGCACUGGAUUUUGGGGGCGAAGAGCUGGAAAACUUAAUUAGCCAGCCGCAGUCCGAUAUCCAAUUGGGAUGGUGAUUGUUCCUGAAACCGAGGCAAA
..(((((..(((.(((..(((((((...(((((..((.....))..)))))(((..((((((.....))))))...))).)))))))..))))))..))))) ( -35.70)
>DroEre_CAF1 41555 102 - 1
AAUUUGCAAUGGAUUUCGGGGGCGUGGAGCUGGAAAACUUAAUUAGCCAGCCGCAGUCCAAAAUCCAAAUGGGAUGGUGAUUGUUCCUGAAACCGAGGCAAA
..(((((..(((.(((((((((((((..(((((..((.....))..))))))))(((((...((((.....)))).).)))))))))))))))))..))))) ( -36.30)
>DroYak_CAF1 27746 102 - 1
AAUUUUCAAUGGAUUUUGGGGGCGAAGAGCUGGAAAACUUAAUUAGCCAGCCGCAAUCCCAAAUCCAAUUGGGAUGGUGAUUGUUCCUGAAACCGAGGCAAA
.........(((.(((..(((((((...(((((..((.....))..)))))(((.(((((((......))))))).))).)))))))..))))))....... ( -34.30)
>consensus
AAUUUGCAAUGGAUUUUGGGGGCGAAGAGCUGGAAAACUUAAUUAGCCAGCCGCAGUCCGAUAUCCAAUUGGGAUGGUGAUUGUUCCUGAAACCGAGGCAAA
..(((((..(((.((((((((((((...(((((.............)))))(((.((((............)))).))).)))))))))))))))..))))) (-31.18 = -31.46 +   0.28)

alignment

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secondary structure

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dotplot

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Window 9

Location 15,878,025 – 15,878,132
Length 107
Sequences 6
Columns 107
Reading direction forward
Mean pairwise identity 81.50
Mean single sequence MFE -26.69
Consensus MFE -17.65
Energy contribution -17.91
Covariance contribution 0.25
Combinations/Pair 1.21
Mean z-score -2.09
Structure conservation index 0.66
SVM decision value 0.58
SVM RNA-class probability 0.787518
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15878025 107 + 22407834
UGGAUAUCUGACUGCGGCUGGCUAAUUAAGUUUUCCAGCUCUUCGCCCCCAAAAUCCAUUGCAAAUUGGCCCCUUAAAUUUGCCUAGGCCGCAAAAUUUUCCACCAU
((((........((((((((((......(((......)))....))).............(((((((.........)))))))...)))))))......)))).... ( -24.04)
>DroSec_CAF1 51526 107 + 1
UGGAUAUCGGACUGCGGCUGGGUAAUUAAGUUUUCCAGCUCUUCGCCCCCAAAAUCCAGUGCAAAUUGGCCCCUAAAAUUUUCCUACGCCGCAAAAUUUUCCACCAU
((((........((((((.(((..(...(((......)))..)..))).......(((((....)))))..................))))))......)))).... ( -24.14)
>DroSim_CAF1 51595 107 + 1
UGGAUAUCGGACUGCGGCUGGCUAAUUAAGUUUUCCAGCUCUUCGCCCCCAAAAUCCAGUGCAAAUUGGCCCCUAAAAUUUGCCUAGGCCGCAAAAUUUUCCACCAU
((((........((((((((((......(((......)))....)))..........((.(((((((.........))))))))).)))))))......)))).... ( -25.34)
>DroEre_CAF1 41590 107 + 1
UGGAUUUUGGACUGCGGCUGGCUAAUUAAGUUUUCCAGCUCCACGCCCCCGAAAUCCAUUGCAAAUUGGCCCCUAAAAUUUGCCUAGGCCACAAAAUUUUCCACCAU
((((((((((...((((((((..(((...)))..)))))....)))..))))))))))........(((((...............)))))................ ( -28.96)
>DroYak_CAF1 27781 107 + 1
UGGAUUUGGGAUUGCGGCUGGCUAAUUAAGUUUUCCAGCUCUUCGCCCCCAAAAUCCAUUGAAAAUUGGCCCCUAAAACUUGCCUAGGCCGCAAAAUUUUCCACCAU
((((((((((...((((((((..(((...)))..)))))....))).))).)))))))..(((((((((((...............))))....)))))))...... ( -28.96)
>DroPer_CAF1 70675 83 + 1
UGGAUGUUGCGCUGCGGCAGGCUAAUUAAGCUGU--------GUGCCA-------------CAGAAUGGUC--U-AAAAUUGUUUAUGCCGCAGCAUUUUCCAAUAU
((((((((((.(((.((((.((..........))--------.)))).-------------)))...(((.--(-(((....)))).)))))))))...)))).... ( -28.70)
>consensus
UGGAUAUCGGACUGCGGCUGGCUAAUUAAGUUUUCCAGCUCUUCGCCCCCAAAAUCCAUUGCAAAUUGGCCCCUAAAAUUUGCCUAGGCCGCAAAAUUUUCCACCAU
((((........((((((((((.((((.(((......)))....(((....................)))......)))).)))..)))))))......)))).... (-17.65 = -17.91 +   0.25)

alignment

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secondary structure

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dotplot

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Window 0

Location 15,878,025 – 15,878,132
Length 107
Sequences 6
Columns 107
Reading direction reverse
Mean pairwise identity 81.50
Mean single sequence MFE -29.81
Consensus MFE -18.65
Energy contribution -19.88
Covariance contribution 1.23
Combinations/Pair 1.23
Mean z-score -1.55
Structure conservation index 0.63
SVM decision value -0.08
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15878025 107 - 22407834
AUGGUGGAAAAUUUUGCGGCCUAGGCAAAUUUAAGGGGCCAAUUUGCAAUGGAUUUUGGGGGCGAAGAGCUGGAAAACUUAAUUAGCCAGCCGCAGUCAGAUAUCCA
....((((.....(((((((...(((....(((((...(((.(((((..(.(....).)..)))))....)))....)))))...))).))))))).......)))) ( -28.40)
>DroSec_CAF1 51526 107 - 1
AUGGUGGAAAAUUUUGCGGCGUAGGAAAAUUUUAGGGGCCAAUUUGCACUGGAUUUUGGGGGCGAAGAGCUGGAAAACUUAAUUACCCAGCCGCAGUCCGAUAUCCA
.((((..((((((((.(......).))))))))....)))).........((((.(((((.(((....(((((.............))))))))..))))).)))). ( -30.22)
>DroSim_CAF1 51595 107 - 1
AUGGUGGAAAAUUUUGCGGCCUAGGCAAAUUUUAGGGGCCAAUUUGCACUGGAUUUUGGGGGCGAAGAGCUGGAAAACUUAAUUAGCCAGCCGCAGUCCGAUAUCCA
..((((..(((((....(((((.............)))))))))).))))((((.(((((.(((....(((((..((.....))..))))))))..))))).)))). ( -31.52)
>DroEre_CAF1 41590 107 - 1
AUGGUGGAAAAUUUUGUGGCCUAGGCAAAUUUUAGGGGCCAAUUUGCAAUGGAUUUCGGGGGCGUGGAGCUGGAAAACUUAAUUAGCCAGCCGCAGUCCAAAAUCCA
....((((........((((((.............))))))........((((((.(((.(((...(((.(....).))).....)))..))).))))))...)))) ( -30.72)
>DroYak_CAF1 27781 107 - 1
AUGGUGGAAAAUUUUGCGGCCUAGGCAAGUUUUAGGGGCCAAUUUUCAAUGGAUUUUGGGGGCGAAGAGCUGGAAAACUUAAUUAGCCAGCCGCAAUCCCAAAUCCA
......(((((((....(((((.............))))))))))))..(((((((.(((.(((....(((((..((.....))..))))))))...)))))))))) ( -32.22)
>DroPer_CAF1 70675 83 - 1
AUAUUGGAAAAUGCUGCGGCAUAAACAAUUUU-A--GACCAUUCUG-------------UGGCAC--------ACAGCUUAAUUAGCCUGCCGCAGCGCAACAUCCA
....((((...((((((((((...........-.--(.((((...)-------------))))..--------...(((.....))).)))))))))).....)))) ( -25.80)
>consensus
AUGGUGGAAAAUUUUGCGGCCUAGGCAAAUUUUAGGGGCCAAUUUGCAAUGGAUUUUGGGGGCGAAGAGCUGGAAAACUUAAUUAGCCAGCCGCAGUCCGAUAUCCA
....((((.....(((((((...(((.((((.......(((.(((((..............)))))....))).......)))).))).))))))).......)))) (-18.65 = -19.88 +   1.23)

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 11:48:24 2006