Locus 7300

Sequence ID 3L_DroMel_CAF1
Location 19,533,864 – 19,533,984
Length 120
Max. P 0.857751
window11865 window11866

overview

Window 5

Location 19,533,864 – 19,533,984
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 92.50
Mean single sequence MFE -46.47
Consensus MFE -42.76
Energy contribution -43.43
Covariance contribution 0.67
Combinations/Pair 1.05
Mean z-score -1.97
Structure conservation index 0.92
SVM decision value 0.67
SVM RNA-class probability 0.818533
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19533864 120 + 23771897
CCUGCUGCCGCCGGCUCAGAACGAGGCCUCCACCAGGUAGGUGCCAUCCAUGGGCUGAUUGUUUUGGCUAUUCUGAGCAUUGCUGGCAGCCGGCAUGUACUUGCCGCAGGCCUAAAUAGA
(((((.((.((((((.((((((((.((((((....)).))))(((.......)))...))))))))(((......)))...)))))).)).((((......))))))))).......... ( -48.00)
>DroWil_CAF1 14733 119 + 1
GCUGCCGCUGCUGGCUCAGAACGAGGCCUCCACUAGAUAAGUGCCAUCCAUGGGCUGAUUGUUUUGGCUAUUUUGAGCAUUGCUGGCAGCUGGCAUAUACUUUCCACAGGCCUAAA-AGA
..(((((((((..((.(((((((((((((.((((.....))))........)))))..))))))))(((......)))...))..))))).)))).....................-... ( -38.70)
>DroYak_CAF1 17502 120 + 1
CCUGCUGCUGCCGGCUCAGAACGAGGCCUCCACCAGGUAGGUGCCAUCCAUGGGCUGAUUGUUUUGGCUAUUCUGAGCAUUGCUGGCAGCUGGCAUGUACUUGCCGCAGGCCUAAACAGA
(((((.(((((((((.((((((((.((((((....)).))))(((.......)))...))))))))(((......)))...))))))))).((((......))))))))).......... ( -52.70)
>consensus
CCUGCUGCUGCCGGCUCAGAACGAGGCCUCCACCAGGUAGGUGCCAUCCAUGGGCUGAUUGUUUUGGCUAUUCUGAGCAUUGCUGGCAGCUGGCAUGUACUUGCCGCAGGCCUAAA_AGA
(((((.(((((((((.(((((((((((((.((((.....))))........)))))..))))))))(((......)))...))))))))).((((......))))))))).......... (-42.76 = -43.43 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 19,533,864 – 19,533,984
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 92.50
Mean single sequence MFE -44.90
Consensus MFE -41.35
Energy contribution -41.80
Covariance contribution 0.45
Combinations/Pair 1.08
Mean z-score -2.06
Structure conservation index 0.92
SVM decision value 0.81
SVM RNA-class probability 0.857751
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19533864 120 - 23771897
UCUAUUUAGGCCUGCGGCAAGUACAUGCCGGCUGCCAGCAAUGCUCAGAAUAGCCAAAACAAUCAGCCCAUGGAUGGCACCUACCUGGUGGAGGCCUCGUUCUGAGCCGGCGGCAGCAGG
..........(((.(((((......)))))((((((.((...(((((((((.(((....((.(((.....))).)).((((.....))))..)))...)))))))))..))))))))))) ( -50.10)
>DroWil_CAF1 14733 119 - 1
UCU-UUUAGGCCUGUGGAAAGUAUAUGCCAGCUGCCAGCAAUGCUCAAAAUAGCCAAAACAAUCAGCCCAUGGAUGGCACUUAUCUAGUGGAGGCCUCGUUCUGAGCCAGCAGCGGCAGC
...-....(((.((((.....)))).))).((((((.((...(((((.(((.(((....((.(((.....))).)).((((.....))))..)))...))).))))).....)))))))) ( -34.40)
>DroYak_CAF1 17502 120 - 1
UCUGUUUAGGCCUGCGGCAAGUACAUGCCAGCUGCCAGCAAUGCUCAGAAUAGCCAAAACAAUCAGCCCAUGGAUGGCACCUACCUGGUGGAGGCCUCGUUCUGAGCCGGCAGCAGCAGG
..........(((((((((......)))).(((((((....)(((((((((.(((....((.(((.....))).)).((((.....))))..)))...))))))))).)))))).))))) ( -50.20)
>consensus
UCU_UUUAGGCCUGCGGCAAGUACAUGCCAGCUGCCAGCAAUGCUCAGAAUAGCCAAAACAAUCAGCCCAUGGAUGGCACCUACCUGGUGGAGGCCUCGUUCUGAGCCGGCAGCAGCAGG
..........(((((((((......)))).((((((......(((((((((.(((....((.(((.....))).)).((((.....))))..)))...))))))))).)))))).))))) (-41.35 = -41.80 +   0.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:43:29 2006