Locus 6387

Sequence ID X_DroMel_CAF1
Location 16,032,201 – 16,032,353
Length 152
Max. P 0.954177
window10425 window10426 window10427

overview

Window 5

Location 16,032,201 – 16,032,313
Length 112
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 61.60
Mean single sequence MFE -32.33
Consensus MFE -13.54
Energy contribution -12.89
Covariance contribution -0.65
Combinations/Pair 1.35
Mean z-score -1.96
Structure conservation index 0.42
SVM decision value 0.19
SVM RNA-class probability 0.626477
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16032201 112 + 22224390
AUUUCGUAUGUAACUUGAGUUCAAAGUCCCGAUUGUGUUUG------UCCAGAAACG--CAAGUGGCAAAAAAUCGGGCGCCAUGGACUCGUUAUCCUGCGCCCGCCCUUCCUAUGCCCA
....((((.(((((..(((((((..(((((((((...((((------((.....((.--...)))))))).))))))).))..))))))))))))..))))................... ( -32.30)
>DroEre_CAF1 99995 101 + 1
AUUUCGUACGUUACUCAAGCUAAAAAGUUCGAUUGUACC-------------AAGUGGCAAAGUGGAA-AAAGUUGGGCGCCAGGAACUCGCCAUCCUGCGCU----CCUCCUUUGCC-C
((((.(((((....((.((((....)))).)).))))).-------------))))(((((((..(..-......((((((.((((........)))))))))----))..)))))))-. ( -30.50)
>DroYak_CAF1 82560 111 + 1
A----AUGCGCUCUAUAAGCAUUGAAGUUCGAUUGCAUUUACAUAUACGCAGAAACCAAAAAGUGGCA-AAAGUCGGGCGCCAGGAACUCGUAAUCCUGCGCU----CCUCCUUUGCCAC
(----(((((((.....)))((((.....)))).))))).......................((((((-((.(..((((((.((((........)))))))))----)..).)))))))) ( -34.20)
>consensus
AUUUCGUACGUUACUUAAGCUAAAAAGUUCGAUUGUAUUU_________CAGAAACG__AAAGUGGCA_AAAGUCGGGCGCCAGGAACUCGUAAUCCUGCGCU____CCUCCUUUGCC_C
..................((......((((((((.....................................))))))))(((((((........))))).)).............))... (-13.54 = -12.89 +  -0.65)

alignment

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secondary structure

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dotplot

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Window 6

Location 16,032,241 – 16,032,353
Length 112
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 77.36
Mean single sequence MFE -34.32
Consensus MFE -20.34
Energy contribution -20.23
Covariance contribution -0.11
Combinations/Pair 1.09
Mean z-score -2.36
Structure conservation index 0.59
SVM decision value 1.44
SVM RNA-class probability 0.954177
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16032241 112 + 22224390
G------UCCAGAAACG--CAAGUGGCAAAAAAUCGGGCGCCAUGGACUCGUUAUCCUGCGCCCGCCCUUCCUAUGCCCAGAUAAUCGAUGCAUAAUAAAUGGCAUCACUGUCCCAUCUG
.------..((((.((.--...))((((......(((((((...(((.......))).))))))).........))))..((((...(((((..........)))))..))))...)))) ( -32.06)
>DroEre_CAF1 100034 102 + 1
------------AAGUGGCAAAGUGGAA-AAAGUUGGGCGCCAGGAACUCGCCAUCCUGCGCU----CCUCCUUUGCC-CGAUAAUCGAUGCAUAAUAAAUGGCAUCACUGUCCCAUCGG
------------..((((...(((((..-((((..((((((.((((........)))))))).----))..))))..)-).......(((((..........))))))))...))))... ( -32.00)
>DroYak_CAF1 82596 115 + 1
ACAUAUACGCAGAAACCAAAAAGUGGCA-AAAGUCGGGCGCCAGGAACUCGUAAUCCUGCGCU----CCUCCUUUGCCACGAUAAUCGAUGCAUAAUAAAUGGCAUCACUGUCCCAUCGG
........((((..........((((((-((.(..((((((.((((........)))))))))----)..).)))))))).......(((((..........))))).))))........ ( -38.90)
>consensus
_________CAGAAACG__AAAGUGGCA_AAAGUCGGGCGCCAGGAACUCGUAAUCCUGCGCU____CCUCCUUUGCC_CGAUAAUCGAUGCAUAAUAAAUGGCAUCACUGUCCCAUCGG
......................((((..........(((((.((((........))))))))).................((((...(((((..........)))))..))))))))... (-20.34 = -20.23 +  -0.11)

alignment

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secondary structure

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dotplot

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Window 7

Location 16,032,241 – 16,032,353
Length 112
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 77.36
Mean single sequence MFE -39.60
Consensus MFE -24.80
Energy contribution -24.03
Covariance contribution -0.77
Combinations/Pair 1.13
Mean z-score -2.13
Structure conservation index 0.63
SVM decision value 1.34
SVM RNA-class probability 0.943944
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16032241 112 - 22224390
CAGAUGGGACAGUGAUGCCAUUUAUUAUGCAUCGAUUAUCUGGGCAUAGGAAGGGCGGGCGCAGGAUAACGAGUCCAUGGCGCCCGAUUUUUUGCCACUUG--CGUUUCUGGA------C
(((((((.....((((((.((.....)))))))).)))))))((((.(((((...(((((((.((((.....))))...))))))).))))))))).....--..........------. ( -40.60)
>DroEre_CAF1 100034 102 - 1
CCGAUGGGACAGUGAUGCCAUUUAUUAUGCAUCGAUUAUCG-GGCAAAGGAGG----AGCGCAGGAUGGCGAGUUCCUGGCGCCCAACUUU-UUCCACUUUGCCACUU------------
.((((((.....((((((.((.....)))))))).))))))-(((((((..((----(((((((((........)))).))))........-.))).)))))))....------------ ( -35.60)
>DroYak_CAF1 82596 115 - 1
CCGAUGGGACAGUGAUGCCAUUUAUUAUGCAUCGAUUAUCGUGGCAAAGGAGG----AGCGCAGGAUUACGAGUUCCUGGCGCCCGACUUU-UGCCACUUUUUGGUUUCUGCGUAUAUGU
..(((((..((....)))))))...((((((..(((((..((((((((((.((----.((((((((........)))).))))))..))))-))))))....)))))..))))))..... ( -42.60)
>consensus
CCGAUGGGACAGUGAUGCCAUUUAUUAUGCAUCGAUUAUCG_GGCAAAGGAGG____AGCGCAGGAUAACGAGUUCCUGGCGCCCGACUUU_UGCCACUUU__CGUUUCUG_________
.((((((.....((((((.((.....)))))))).)))))).((((...((((.....((((.((((.....))))...))))....)))).))))........................ (-24.80 = -24.03 +  -0.77)

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 12:12:26 2006