Locus 7034

Sequence ID X_DroMel_CAF1
Location 17,595,134 – 17,595,293
Length 159
Max. P 0.998745
window11496 window11497 window11498

overview

Window 6

Location 17,595,134 – 17,595,253
Length 119
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 81.08
Mean single sequence MFE -24.92
Consensus MFE -19.78
Energy contribution -20.18
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -2.59
Structure conservation index 0.79
SVM decision value 2.22
SVM RNA-class probability 0.990596
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17595134 119 - 22224390
AAUCCACCGCUGACUGCCCAGCUCCAUUAUAUUCCCAUUUCGGUUGCAUGUAACCGAUCAGGAACCGACGAUCGGUUAACCCCAAUCCCAUUCCCGAUCCCAAACCCCACACCACCUUA-
........((((......)))).........((((....(((((((....)))))))...)))).....((((((..................))))))....................- ( -24.07)
>DroSec_CAF1 14596 118 - 1
AAUCCACCGCUGACUGCCCAGCUCCAUUAUAUUCCCAUUUCGGUUGCAUGUAACCGAUAGGGAACCGACGAUCGGUUAACCCCAUUCCCGAUCCCAAGCCCCCACC-CCUCCCCCCUCA-
........((((......)))).........(((((...(((((((....)))))))..))))).....((((((..(......)..)))))).............-............- ( -28.80)
>DroSim_CAF1 33275 119 - 1
AAUCCACCGCUGACUGCCCAGCUCCAUUAUAUUCCCAUUUCGGUUGCAUGUAACCGAUCAGGAACCGACGAUCGGUUAACCCCAUUCCCGAUCCCAAGCCCCCACCCCCUCCCCCCUCA-
........((((......)))).........((((....(((((((....)))))))...)))).....((((((..(......)..))))))..........................- ( -25.10)
>DroEre_CAF1 21099 115 - 1
AAUCCAGCGCUGACUGGCCAGCUCCAUUAUAUUCCCAUUUCGGUUGCAUGUAACCGAUCAGGAACCGACGAUCGCUUAACCC-AUUCCCGGUUCCCGGUUCCCGA---UUUCCCCCAUC-
........((((......)))).................(((((((....)))))))((.(((((((..(((((........-.....)))))..))))))).))---...........- ( -29.22)
>DroYak_CAF1 26226 95 - 1
AAUCCACCGCCGACUGCCCAGCUCCAUUAUAUUCCCAUUUCGGUUGCAUGUAACCGAUCAGGAACCGAACAUCGGUUAACCCCAUUCC-------------------------CCCAUCC
........(((((..((...)).........((((....(((((((....)))))))...)))).......)))))............-------------------------....... ( -17.40)
>consensus
AAUCCACCGCUGACUGCCCAGCUCCAUUAUAUUCCCAUUUCGGUUGCAUGUAACCGAUCAGGAACCGACGAUCGGUUAACCCCAUUCCCGAUCCCAAGCCCCCACC_CCUCCCCCCUUA_
........((((......))))............((...(((((((....)))))))...))(((((.....)))))........................................... (-19.78 = -20.18 +   0.40)

alignment

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secondary structure

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dotplot

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Window 7

Location 17,595,173 – 17,595,293
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 97.33
Mean single sequence MFE -37.52
Consensus MFE -34.02
Energy contribution -34.50
Covariance contribution 0.48
Combinations/Pair 1.06
Mean z-score -1.34
Structure conservation index 0.91
SVM decision value 0.41
SVM RNA-class probability 0.724516
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17595173 120 + 22224390
GUUAACCGAUCGUCGGUUCCUGAUCGGUUACAUGCAACCGAAAUGGGAAUAUAAUGGAGCUGGGCAGUCAGCGGUGGAUUGGCAUGACCAAUGUGAUGGACAGUAAGCAAUGAUCGGCAU
.....((((((((..((((((..((((((......))))))...))))))........(((((....))))).((..((((.(((.((....)).)))..))))..)).))))))))... ( -36.80)
>DroSec_CAF1 14634 120 + 1
GUUAACCGAUCGUCGGUUCCCUAUCGGUUACAUGCAACCGAAAUGGGAAUAUAAUGGAGCUGGGCAGUCAGCGGUGGAUUGGCAUGACCAAUGUGAUGGACAGUAAGCAAUGAUCGGCAU
.....((((((((..((((((..((((((......))))))...))))))........(((((....))))).((..((((.(((.((....)).)))..))))..)).))))))))... ( -39.40)
>DroSim_CAF1 33314 120 + 1
GUUAACCGAUCGUCGGUUCCUGAUCGGUUACAUGCAACCGAAAUGGGAAUAUAAUGGAGCUGGGCAGUCAGCGGUGGAUUGGCAUGACCAAUGUGAUGGACAGUAAGCAAUGAUCGGCAU
.....((((((((..((((((..((((((......))))))...))))))........(((((....))))).((..((((.(((.((....)).)))..))))..)).))))))))... ( -36.80)
>DroEre_CAF1 21134 120 + 1
GUUAAGCGAUCGUCGGUUCCUGAUCGGUUACAUGCAACCGAAAUGGGAAUAUAAUGGAGCUGGCCAGUCAGCGCUGGAUUGGCAUGACCAAUGUGAUGGACAGUAAGCAAUGAUCGGCAU
....(((..((((..((((((..((((((......))))))...))))))...)))).))).(((.((((..(((..((((.(((.((....)).)))..)))).)))..)))).))).. ( -38.40)
>DroYak_CAF1 26241 120 + 1
GUUAACCGAUGUUCGGUUCCUGAUCGGUUACAUGCAACCGAAAUGGGAAUAUAAUGGAGCUGGGCAGUCGGCGGUGGAUUGGCAUGACCAAUGUGAUGGACAGUAAGCAAUGAUCGGCAU
.....(((((((((((((((...((((((......)))))).(((....)))...))))))))))).))))..((.((((.((.((.(((......))).))....))...)))).)).. ( -36.20)
>consensus
GUUAACCGAUCGUCGGUUCCUGAUCGGUUACAUGCAACCGAAAUGGGAAUAUAAUGGAGCUGGGCAGUCAGCGGUGGAUUGGCAUGACCAAUGUGAUGGACAGUAAGCAAUGAUCGGCAU
.....((((((((..((((((..((((((......))))))...))))))........(((((....))))).((..((((.(((.((....)).)))..))))..)).))))))))... (-34.02 = -34.50 +   0.48)

alignment

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secondary structure

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dotplot

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Window 8

Location 17,595,173 – 17,595,293
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 97.33
Mean single sequence MFE -32.11
Consensus MFE -29.68
Energy contribution -30.28
Covariance contribution 0.60
Combinations/Pair 1.00
Mean z-score -2.29
Structure conservation index 0.92
SVM decision value 3.21
SVM RNA-class probability 0.998745
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17595173 120 - 22224390
AUGCCGAUCAUUGCUUACUGUCCAUCACAUUGGUCAUGCCAAUCCACCGCUGACUGCCCAGCUCCAUUAUAUUCCCAUUUCGGUUGCAUGUAACCGAUCAGGAACCGACGAUCGGUUAAC
..(((((((...((....((.(((......))).)).))...(((...((((......)))).................(((((((....)))))))...)))......))))))).... ( -33.30)
>DroSec_CAF1 14634 120 - 1
AUGCCGAUCAUUGCUUACUGUCCAUCACAUUGGUCAUGCCAAUCCACCGCUGACUGCCCAGCUCCAUUAUAUUCCCAUUUCGGUUGCAUGUAACCGAUAGGGAACCGACGAUCGGUUAAC
..(((((((...((....((.(((......))).)).)).........((((......)))).........(((((...(((((((....)))))))..))))).....))))))).... ( -36.90)
>DroSim_CAF1 33314 120 - 1
AUGCCGAUCAUUGCUUACUGUCCAUCACAUUGGUCAUGCCAAUCCACCGCUGACUGCCCAGCUCCAUUAUAUUCCCAUUUCGGUUGCAUGUAACCGAUCAGGAACCGACGAUCGGUUAAC
..(((((((...((....((.(((......))).)).))...(((...((((......)))).................(((((((....)))))))...)))......))))))).... ( -33.30)
>DroEre_CAF1 21134 120 - 1
AUGCCGAUCAUUGCUUACUGUCCAUCACAUUGGUCAUGCCAAUCCAGCGCUGACUGGCCAGCUCCAUUAUAUUCCCAUUUCGGUUGCAUGUAACCGAUCAGGAACCGACGAUCGCUUAAC
..((.((((...(((...((.(((......))).)).((((.((.......)).)))).))).........((((....(((((((....)))))))...)))).....))))))..... ( -30.10)
>DroYak_CAF1 26241 120 - 1
AUGCCGAUCAUUGCUUACUGUCCAUCACAUUGGUCAUGCCAAUCCACCGCCGACUGCCCAGCUCCAUUAUAUUCCCAUUUCGGUUGCAUGUAACCGAUCAGGAACCGAACAUCGGUUAAC
..((((((....(((....(((......(((((.....)))))........))).....))).........((((....(((((((....)))))))...))))......)))))).... ( -26.94)
>consensus
AUGCCGAUCAUUGCUUACUGUCCAUCACAUUGGUCAUGCCAAUCCACCGCUGACUGCCCAGCUCCAUUAUAUUCCCAUUUCGGUUGCAUGUAACCGAUCAGGAACCGACGAUCGGUUAAC
..(((((((...((....((.(((......))).)).))...(((...((((......)))).................(((((((....)))))))...)))......))))))).... (-29.68 = -30.28 +   0.60)

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 12:28:41 2006