Locus 5443

Sequence ID X_DroMel_CAF1
Location 14,179,341 – 14,179,436
Length 95
Max. P 0.954017
window8825 window8826

overview

Window 5

Location 14,179,341 – 14,179,436
Length 95
Sequences 6
Columns 103
Reading direction forward
Mean pairwise identity 78.28
Mean single sequence MFE -23.58
Consensus MFE -15.23
Energy contribution -15.03
Covariance contribution -0.19
Combinations/Pair 1.25
Mean z-score -1.47
Structure conservation index 0.65
SVM decision value 0.37
SVM RNA-class probability 0.710177
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14179341 95 + 22224390
ACG--AAGGAAAAUCGCUAAGGGCCUAUGGCAAUUACCACAUGCAGGCCCUUCUCUCAGUUGCCGUUUCCGUU------UUUGCCCUUUCUCCUAGUACUUUU
...--..(((((...((.((((((((.(((......))).....)))))))).........))..)))))...------........................ ( -19.50)
>DroSec_CAF1 89765 95 + 1
GCG--AAGGAAAAUCGCGAAGGGCCUGUGGCAAUUACCACAUGCAGGUCCUUCUCCCAGUUGCCGUUCCCGUU------AUUGCCCUUUCUCCUAGUACUUUU
((.--.((((.......(((((((((((((......))....)))))))))))...((((.((.......)).------)))).......)))).))...... ( -24.20)
>DroSim_CAF1 67288 95 + 1
GCG--AAGGAAAAUCGCUAAGGGCCUGUGGCAAUUACCACAUGCAGGCCCUUCUCUCAGUUGCCGUUCCCGUU------UUUGCCCUUUCUCCUAGUACUUUU
(((--((((((....(((((((((((((((......))....)))))))))).....))).....))))....------)))))................... ( -24.60)
>DroEre_CAF1 79574 94 + 1
GCG--AAGGAAAAUCGCUAAGGGCCUGUGGCAAUUACCACAUGCAGGCCCUUCUCUCAGCCGCU-UUCCCCUC------UUUGCCCUUCCUCCCAUUACUUUU
(((--(((((((...(((((((((((((((......))....)))))))))).....)))...)-))))....------)))))................... ( -26.90)
>DroYak_CAF1 80205 100 + 1
GCG--AAGGAAAAUCACUAAGGGCCUGUGGCAAUGACCACAUGCAGGCCCUUCUCUCAGCCGCU-UUCCCCUUUUUUUUUUUGCCCUUUCUCCCAUUACUUUU
(((--((((((((.....((((((.(((((......))))).)).(((..........)))...-....)))))))))))))))................... ( -23.70)
>DroAna_CAF1 85380 85 + 1
GCGAUAGGGCGGGUAGCUAAAGGGCUCUGGCAAUUACCACAUGAAGUCCUUCGUC---------CUUCAUCCU------UCUGGCUUUCCUC---GCACUUUA
.....((((((((.(((((((((((....)).........((((((..(...)..---------)))))))))------).)))))...)))---)).))).. ( -22.60)
>consensus
GCG__AAGGAAAAUCGCUAAGGGCCUGUGGCAAUUACCACAUGCAGGCCCUUCUCUCAGUUGCCGUUCCCCUU______UUUGCCCUUUCUCCUAGUACUUUU
..................((((((((((((......))))....))))))))................................................... (-15.23 = -15.03 +  -0.19)

alignment

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secondary structure

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dotplot

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Window 6

Location 14,179,341 – 14,179,436
Length 95
Sequences 6
Columns 103
Reading direction reverse
Mean pairwise identity 78.28
Mean single sequence MFE -29.30
Consensus MFE -20.53
Energy contribution -20.26
Covariance contribution -0.27
Combinations/Pair 1.39
Mean z-score -2.12
Structure conservation index 0.70
SVM decision value 1.44
SVM RNA-class probability 0.954017
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14179341 95 - 22224390
AAAAGUACUAGGAGAAAGGGCAAA------AACGGAAACGGCAACUGAGAGAAGGGCCUGCAUGUGGUAAUUGCCAUAGGCCCUUAGCGAUUUUCCUU--CGU
.........(((((((...((...------..((....))...........((((((((....(((((....))))))))))))).))..))))))).--... ( -30.70)
>DroSec_CAF1 89765 95 - 1
AAAAGUACUAGGAGAAAGGGCAAU------AACGGGAACGGCAACUGGGAGAAGGACCUGCAUGUGGUAAUUGCCACAGGCCCUUCGCGAUUUUCCUU--CGC
.............(((.((((...------..((....))(((...((........))))).((((((....)))))).)))))))((((.......)--))) ( -27.70)
>DroSim_CAF1 67288 95 - 1
AAAAGUACUAGGAGAAAGGGCAAA------AACGGGAACGGCAACUGAGAGAAGGGCCUGCAUGUGGUAAUUGCCACAGGCCCUUAGCGAUUUUCCUU--CGC
.........(((((((...((...------..((....))...........((((((((....(((((....))))))))))))).))..))))))).--... ( -30.50)
>DroEre_CAF1 79574 94 - 1
AAAAGUAAUGGGAGGAAGGGCAAA------GAGGGGAA-AGCGGCUGAGAGAAGGGCCUGCAUGUGGUAAUUGCCACAGGCCCUUAGCGAUUUUCCUU--CGC
..........(((((((((.....------(((((...-.((((((........)))).)).((((((....))))))..))))).....))))))))--).. ( -33.50)
>DroYak_CAF1 80205 100 - 1
AAAAGUAAUGGGAGAAAGGGCAAAAAAAAAAAGGGGAA-AGCGGCUGAGAGAAGGGCCUGCAUGUGGUCAUUGCCACAGGCCCUUAGUGAUUUUCCUU--CGC
.........((((((((((((.................-.((((((........)))).)).((((((....)))))).)))))).....))))))..--... ( -28.90)
>DroAna_CAF1 85380 85 - 1
UAAAGUGC---GAGGAAAGCCAGA------AGGAUGAAG---------GACGAAGGACUUCAUGUGGUAAUUGCCAGAGCCCUUUAGCUACCCGCCCUAUCGC
...((.((---(.((..(((..((------(((((((((---------..(....).)))))).((((....))))....))))).))).))))).))..... ( -24.50)
>consensus
AAAAGUACUAGGAGAAAGGGCAAA______AACGGGAACGGCAACUGAGAGAAGGGCCUGCAUGUGGUAAUUGCCACAGGCCCUUAGCGAUUUUCCUU__CGC
.........(((((((...((...................))......(..(((((((((....((((....)))))))))))))..)..)))))))...... (-20.53 = -20.26 +  -0.27)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:48:00 2006