Locus 6045

Sequence ID X_DroMel_CAF1
Location 15,515,241 – 15,515,382
Length 141
Max. P 0.979891
window9826 window9827 window9828

overview

Window 6

Location 15,515,241 – 15,515,351
Length 110
Sequences 3
Columns 111
Reading direction forward
Mean pairwise identity 83.70
Mean single sequence MFE -25.83
Consensus MFE -19.14
Energy contribution -19.03
Covariance contribution -0.11
Combinations/Pair 1.09
Mean z-score -2.66
Structure conservation index 0.74
SVM decision value 1.32
SVM RNA-class probability 0.941885
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15515241 110 + 22224390
AAAAAUGGCAUGGGAAGGAACAUUGAAUGGCCAAAAAUUAGCAUCUUUUACAUUCGAAAAUGUCAAAAGAAGAUGCAUCA-AAGCGGCGGCAUGAUUUCAAUAUAAUCCCC
...........((((......((((((..(((........((((((((((((((....)))))....))))))))).((.-....)).))).....))))))....)))). ( -23.60)
>DroSec_CAF1 75703 97 + 1
---------AUG----GGAACCUUAAACCGCCAGAAAUUAGCAUCUUCUCCAUUCGAAAAUGUCCAAAGAAGAUGCAUCA-AGGCGGCGGCAUGAUUUCAAUAUAAUCCCA
---------.((----(((........(((((........(((((((((.((((....)))).....)))))))))....-....)))))..((....))......))))) ( -26.89)
>DroSim_CAF1 87687 98 + 1
---------AUG----GGAACCUUAAACCGCCAAAAAUUAGCAUCUUCUCCAUUCGAAAAUGUCCAAAGAAGAUGCAUCGGCGGCGGCGGCAUGAUUUCAAUAUAAUCCCA
---------.((----(((........(((((........(((((((((.((((....)))).....)))))))))...(....))))))..((....))......))))) ( -27.00)
>consensus
_________AUG____GGAACCUUAAACCGCCAAAAAUUAGCAUCUUCUCCAUUCGAAAAUGUCCAAAGAAGAUGCAUCA_AGGCGGCGGCAUGAUUUCAAUAUAAUCCCA
................(((........(((((........(((((((((.((((....)))).....))))))))).........)))))..((....))......))).. (-19.14 = -19.03 +  -0.11)

alignment

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secondary structure

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dotplot

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Window 7

Location 15,515,241 – 15,515,351
Length 110
Sequences 3
Columns 111
Reading direction reverse
Mean pairwise identity 83.70
Mean single sequence MFE -32.01
Consensus MFE -22.48
Energy contribution -23.59
Covariance contribution 1.11
Combinations/Pair 1.03
Mean z-score -3.35
Structure conservation index 0.70
SVM decision value 1.85
SVM RNA-class probability 0.979891
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15515241 110 - 22224390
GGGGAUUAUAUUGAAAUCAUGCCGCCGCUU-UGAUGCAUCUUCUUUUGACAUUUUCGAAUGUAAAAGAUGCUAAUUUUUGGCCAUUCAAUGUUCCUUCCCAUGCCAUUUUU
(((((..(((((((....(((..((((...-....(((((((......(((((....)))))..))))))).......))))))))))))))...)))))........... ( -26.64)
>DroSec_CAF1 75703 97 - 1
UGGGAUUAUAUUGAAAUCAUGCCGCCGCCU-UGAUGCAUCUUCUUUGGACAUUUUCGAAUGGAGAAGAUGCUAAUUUCUGGCGGUUUAAGGUUCC----CAU---------
(((((......((....)).(((((((((.-.((.(((((((((..(..(......)..)..))))))))).....)).))))))....))))))----)).--------- ( -33.40)
>DroSim_CAF1 87687 98 - 1
UGGGAUUAUAUUGAAAUCAUGCCGCCGCCGCCGAUGCAUCUUCUUUGGACAUUUUCGAAUGGAGAAGAUGCUAAUUUUUGGCGGUUUAAGGUUCC----CAU---------
(((((......((....)).(((...((((((((.(((((((((..(..(......)..)..)))))))))......))))))))....))))))----)).--------- ( -36.00)
>consensus
UGGGAUUAUAUUGAAAUCAUGCCGCCGCCU_UGAUGCAUCUUCUUUGGACAUUUUCGAAUGGAGAAGAUGCUAAUUUUUGGCGGUUUAAGGUUCC____CAU_________
.(((((....((((......(((((((........((((((((((....((((....)))))))))))))).......))))))))))).)))))................ (-22.48 = -23.59 +   1.11)

alignment

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secondary structure

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dotplot

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Window 8

Location 15,515,280 – 15,515,382
Length 102
Sequences 3
Columns 103
Reading direction forward
Mean pairwise identity 92.86
Mean single sequence MFE -22.67
Consensus MFE -18.77
Energy contribution -19.00
Covariance contribution 0.23
Combinations/Pair 1.08
Mean z-score -2.03
Structure conservation index 0.83
SVM decision value 0.04
SVM RNA-class probability 0.555520
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15515280 102 + 22224390
AGCAUCUUUUACAUUCGAAAAUGUCAAAAGAAGAUGCAUCA-AAGCGGCGGCAUGAUUUCAAUAUAAUCCCCGAGUGCCACGAAAAUAAUCAAUCAAUUUCUU
.((((((((((((((....)))))....)))))))))....-...((..(((((((((.......)))).....))))).))..................... ( -20.20)
>DroSec_CAF1 75729 102 + 1
AGCAUCUUCUCCAUUCGAAAAUGUCCAAAGAAGAUGCAUCA-AGGCGGCGGCAUGAUUUCAAUAUAAUCCCAGAAUGCGCCGAAAAUAAUCAAUCAAUUUCUU
.(((((((((.((((....)))).....)))))))))....-...(((((.(((((((.......)))).....))))))))..................... ( -22.80)
>DroSim_CAF1 87713 103 + 1
AGCAUCUUCUCCAUUCGAAAAUGUCCAAAGAAGAUGCAUCGGCGGCGGCGGCAUGAUUUCAAUAUAAUCCCAGAAUGCGCCGAAAAUAAUCAAUCAAUUUCUU
.(((((((((.((((....)))).....))))))))).((((((((....))..((((.......))))........)))))).................... ( -25.00)
>consensus
AGCAUCUUCUCCAUUCGAAAAUGUCCAAAGAAGAUGCAUCA_AGGCGGCGGCAUGAUUUCAAUAUAAUCCCAGAAUGCGCCGAAAAUAAUCAAUCAAUUUCUU
.(((((((((.((((....)))).....)))))))))........(((((.(((((((.......)))).....))))))))..................... (-18.77 = -19.00 +   0.23)

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 12:02:52 2006