Locus 6110

Sequence ID X_DroMel_CAF1
Location 15,654,959 – 15,655,098
Length 139
Max. P 0.974127
window9928 window9929 window9930 window9931

overview

Window 8

Location 15,654,959 – 15,655,079
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 80.89
Mean single sequence MFE -35.49
Consensus MFE -22.14
Energy contribution -21.84
Covariance contribution -0.30
Combinations/Pair 1.32
Mean z-score -1.58
Structure conservation index 0.62
SVM decision value 0.04
SVM RNA-class probability 0.553724
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15654959 120 + 22224390
GUCUUUGCAUUUAUUAAAUGAGAAAGAACAAGCGUUGCAGGUCAUGAGCACAAUGACCAGUUCGCAAAUCGUGUCCGCCCAAGCGGCCAACAAUCUGGCAUUGGCUGCCACGGCAUUAUC
.(((((.((((.....))))..)))))....(((..((.((((((.......)))))).)).)))...........(((...((((((((..........))))))))...)))...... ( -34.60)
>DroVir_CAF1 67223 120 + 1
AUCCUUGCGUUUACUCAAUGAGAAAGAGCAAACCCUGCAGGCCAUGAGCUCAAUGACCAGCUCACAAAUUGUCUCCGCACAGGCGGCCAAUAAUCUUGCCCUGGCCGCCUCGGCGCUGAC
...(((((((((.(((.........))).))))...)))))...((((((........))))))......(((..(((..(((((((((............)))))))))..)))..))) ( -40.30)
>DroPse_CAF1 49285 120 + 1
GUCCCUGCAUUUAUUAAAUGGCAAAGAUCAGACUCUGCAAGCCAUGAGCACGAUGACUAGUUCACAAAUCGUAUCUGCCCAAGCAGCCAAUAAUCUGGCACUGGCUGCUUCAGCGCUGUC
.................(((((..(((......)))....))))).((((((((.............)))))....((..(((((((((............)))))))))..)))))... ( -30.32)
>DroWil_CAF1 7884 120 + 1
CUCCUUGCAUUUACUUAACGAGAAAGAGCAGACACUGCAGGCAAUGAGCACCAUGACCAGUUCACAGAUUGUCUCCGCUCAGGCGGCAAAUAAUUUGGCGUUGGCUGCAUCGGCAUUAUC
(((.(((........))).))).....((.((...(((((.((((((((..........)))).((((((((..((((....))))...))))))))..)))).))))))).))...... ( -30.90)
>DroMoj_CAF1 71480 120 + 1
CUCCUUGCAUUUACUCAAUGAGAAAGAGCAAACCCUGCAGGCCAUGAGCUCAAUGACCAGCUCACAGAUUGUCUCCGCCCAGGCGGCCAAUAAUCUAGCGUUGGCCGCCUCGGCGCUCAC
(((.(((........))).)))...((((.......((((....((((((........))))))....))))....(((.(((((((((((........))))))))))).))))))).. ( -46.50)
>DroPer_CAF1 60354 120 + 1
GUCCCUGCAUUUAUUAAAUGGCAAAGAUCAGACUCUGCAAGCCAUGAGCACGAUGACUAGUUCACAAAUCGUAUCUGCCCAAGCAGCCAAUAAUCUGGCACUGGCUGCUUCAGCGCUGUC
.................(((((..(((......)))....))))).((((((((.............)))))....((..(((((((((............)))))))))..)))))... ( -30.32)
>consensus
GUCCUUGCAUUUACUAAAUGAGAAAGAGCAAACCCUGCAGGCCAUGAGCACAAUGACCAGUUCACAAAUCGUCUCCGCCCAAGCGGCCAAUAAUCUGGCACUGGCUGCCUCGGCGCUGUC
...((((((..........................))))))...(((((..........)))))............((..(((((((((............)))))))))..))...... (-22.14 = -21.84 +  -0.30)

alignment

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secondary structure

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Window 9

Location 15,654,959 – 15,655,079
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 80.89
Mean single sequence MFE -41.65
Consensus MFE -30.19
Energy contribution -29.37
Covariance contribution -0.83
Combinations/Pair 1.45
Mean z-score -1.63
Structure conservation index 0.72
SVM decision value 0.50
SVM RNA-class probability 0.760480
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15654959 120 - 22224390
GAUAAUGCCGUGGCAGCCAAUGCCAGAUUGUUGGCCGCUUGGGCGGACACGAUUUGCGAACUGGUCAUUGUGCUCAUGACCUGCAACGCUUGUUCUUUCUCAUUUAAUAAAUGCAAAGAC
......(((..(((.((((((........)))))).)))..)))(((((.(..(((((....((((((.......)))))))))))..).)))))......................... ( -32.90)
>DroVir_CAF1 67223 120 - 1
GUCAGCGCCGAGGCGGCCAGGGCAAGAUUAUUGGCCGCCUGUGCGGAGACAAUUUGUGAGCUGGUCAUUGAGCUCAUGGCCUGCAGGGUUUGCUCUUUCUCAUUGAGUAAACGCAAGGAU
(((..(((..((((((((((..........))))))))))..)))..)))...(..((((((.(....).))))))..)(((...(.((((((((.........)))))))).).))).. ( -51.80)
>DroPse_CAF1 49285 120 - 1
GACAGCGCUGAAGCAGCCAGUGCCAGAUUAUUGGCUGCUUGGGCAGAUACGAUUUGUGAACUAGUCAUCGUGCUCAUGGCUUGCAGAGUCUGAUCUUUGCCAUUUAAUAAAUGCAGGGAC
..((((.(((((((((((((((......))))))))))))((((((((..((((.(....).))))))).)))))........))).).))).(((((((.(((.....)))))))))). ( -41.00)
>DroWil_CAF1 7884 120 - 1
GAUAAUGCCGAUGCAGCCAACGCCAAAUUAUUUGCCGCCUGAGCGGAGACAAUCUGUGAACUGGUCAUGGUGCUCAUUGCCUGCAGUGUCUGCUCUUUCUCGUUAAGUAAAUGCAAGGAG
.......((..((((((....))....(((((((.((...(((((((.((...((((((.....))))))(((.........))))).))))))).....)).))))))).)))).)).. ( -29.90)
>DroMoj_CAF1 71480 120 - 1
GUGAGCGCCGAGGCGGCCAACGCUAGAUUAUUGGCCGCCUGGGCGGAGACAAUCUGUGAGCUGGUCAUUGAGCUCAUGGCCUGCAGGGUUUGCUCUUUCUCAUUGAGUAAAUGCAAGGAG
.....((((.((((((((((..........)))))))))).))))........(((((((((.(....).)))))))))(((...(.((((((((.........)))))))).).))).. ( -53.30)
>DroPer_CAF1 60354 120 - 1
GACAGCGCUGAAGCAGCCAGUGCCAGAUUAUUGGCUGCUUGGGCAGAUACGAUUUGUGAACUAGUCAUCGUGCUCAUGGCUUGCAGAGUCUGAUCUUUGCCAUUUAAUAAAUGCAGGGAC
..((((.(((((((((((((((......))))))))))))((((((((..((((.(....).))))))).)))))........))).).))).(((((((.(((.....)))))))))). ( -41.00)
>consensus
GACAGCGCCGAGGCAGCCAAUGCCAGAUUAUUGGCCGCCUGGGCGGAGACAAUUUGUGAACUGGUCAUUGUGCUCAUGGCCUGCAGAGUCUGCUCUUUCUCAUUUAAUAAAUGCAAGGAC
......(((.((((((((((..........)))))))))).)))((((....(((((.....((((((.(....))))))).))))).....))))........................ (-30.19 = -29.37 +  -0.83)

alignment

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secondary structure

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dotplot

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Window 0

Location 15,654,999 – 15,655,098
Length 99
Sequences 6
Columns 99
Reading direction forward
Mean pairwise identity 75.28
Mean single sequence MFE -31.29
Consensus MFE -20.52
Energy contribution -19.80
Covariance contribution -0.72
Combinations/Pair 1.39
Mean z-score -1.94
Structure conservation index 0.66
SVM decision value 1.61
SVM RNA-class probability 0.967508
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15654999 99 + 22224390
GUCAUGAGCACAAUGACCAGUUCGCAAAUCGUGUCCGCCCAAGCGGCCAACAAUCUGGCAUUGGCUGCCACGGCAUUAUCGGCAGCAGGUGGUGGUGGU
.((((.(.(((((((.((((..(((.....))).((((....))))........)))))))).((((((...........))))))..))).).)))). ( -32.30)
>DroPse_CAF1 49325 84 + 1
GCCAUGAGCACGAUGACUAGUUCACAAAUCGUAUCUGCCCAAGCAGCCAAUAAUCUGGCACUGGCUGCUUCAGCGCUGUCCGUG---------------
..((((((((((((.............)))))....((..(((((((((............)))))))))..)))))...))))--------------- ( -24.02)
>DroGri_CAF1 62224 84 + 1
GCCAUGAGCUCAAUGACCAGCUCACAAAUUGUCUCCGCACAGGCGGCCAAUAAUCUUGCCCUGGCCGCCUCGGCGCUGACGGCG---------------
(((.((((((........))))))......(((..(((..(((((((((............)))))))))..)))..)))))).--------------- ( -39.60)
>DroWil_CAF1 7924 87 + 1
GCAAUGAGCACCAUGACCAGUUCACAGAUUGUCUCCGCUCAGGCGGCAAAUAAUUUGGCGUUGGCUGCAUCGGCAUUAUCAGCGGUG------------
........((((.(((((((..(.((((((((..((((....))))...)))))))))..)))).(((....)))...)))..))))------------ ( -24.70)
>DroMoj_CAF1 71520 84 + 1
GCCAUGAGCUCAAUGACCAGCUCACAGAUUGUCUCCGCCCAGGCGGCCAAUAAUCUAGCGUUGGCCGCCUCGGCGCUCACGGCG---------------
(((.(((((.....(((...(.....)...)))...(((.(((((((((((........))))))))))).)))))))).))).--------------- ( -43.10)
>DroPer_CAF1 60394 84 + 1
GCCAUGAGCACGAUGACUAGUUCACAAAUCGUAUCUGCCCAAGCAGCCAAUAAUCUGGCACUGGCUGCUUCAGCGCUGUCCGUG---------------
..((((((((((((.............)))))....((..(((((((((............)))))))))..)))))...))))--------------- ( -24.02)
>consensus
GCCAUGAGCACAAUGACCAGUUCACAAAUCGUCUCCGCCCAAGCGGCCAAUAAUCUGGCACUGGCUGCCUCGGCGCUGUCGGCG_______________
((..(((((..........)))))............((..(((((((((............)))))))))..)).......))................ (-20.52 = -19.80 +  -0.72)

alignment

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secondary structure

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dotplot

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Window 1

Location 15,654,999 – 15,655,098
Length 99
Sequences 6
Columns 99
Reading direction reverse
Mean pairwise identity 75.28
Mean single sequence MFE -34.28
Consensus MFE -20.94
Energy contribution -20.28
Covariance contribution -0.66
Combinations/Pair 1.44
Mean z-score -2.13
Structure conservation index 0.61
SVM decision value 1.72
SVM RNA-class probability 0.974127
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15654999 99 - 22224390
ACCACCACCACCUGCUGCCGAUAAUGCCGUGGCAGCCAAUGCCAGAUUGUUGGCCGCUUGGGCGGACACGAUUUGCGAACUGGUCAUUGUGCUCAUGAC
.............(((((((.........)))))))(((((((((..((((.(((.....))).))))((.....))..)))).))))).......... ( -30.80)
>DroPse_CAF1 49325 84 - 1
---------------CACGGACAGCGCUGAAGCAGCCAGUGCCAGAUUAUUGGCUGCUUGGGCAGAUACGAUUUGUGAACUAGUCAUCGUGCUCAUGGC
---------------(((((.....(((.((((((((((((......)))))))))))).)))......((((.(....).)))).)))))........ ( -32.80)
>DroGri_CAF1 62224 84 - 1
---------------CGCCGUCAGCGCCGAGGCGGCCAGGGCAAGAUUAUUGGCCGCCUGUGCGGAGACAAUUUGUGAGCUGGUCAUUGAGCUCAUGGC
---------------.((((((..(((..((((((((((..........))))))))))..)))..))).....(((((((.(....).)))))))))) ( -41.60)
>DroWil_CAF1 7924 87 - 1
------------CACCGCUGAUAAUGCCGAUGCAGCCAACGCCAAAUUAUUUGCCGCCUGAGCGGAGACAAUCUGUGAACUGGUCAUGGUGCUCAUUGC
------------....((.......))(((((.(((....((((.........((((....)))).(((.....(....)..))).)))))))))))). ( -19.30)
>DroMoj_CAF1 71520 84 - 1
---------------CGCCGUGAGCGCCGAGGCGGCCAACGCUAGAUUAUUGGCCGCCUGGGCGGAGACAAUCUGUGAGCUGGUCAUUGAGCUCAUGGC
---------------.((((((((((((.((((((((((..........)))))))))).)))(....)..((.((((.....)))).))))))))))) ( -48.40)
>DroPer_CAF1 60394 84 - 1
---------------CACGGACAGCGCUGAAGCAGCCAGUGCCAGAUUAUUGGCUGCUUGGGCAGAUACGAUUUGUGAACUAGUCAUCGUGCUCAUGGC
---------------(((((.....(((.((((((((((((......)))))))))))).)))......((((.(....).)))).)))))........ ( -32.80)
>consensus
_______________CGCCGACAGCGCCGAGGCAGCCAAUGCCAGAUUAUUGGCCGCCUGGGCGGAGACAAUUUGUGAACUGGUCAUUGUGCUCAUGGC
...............(((.......(((.((((((((((..........)))))))))).)))(((.....)))))).....(((((.(....)))))) (-20.94 = -20.28 +  -0.66)

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 12:04:27 2006