Locus 715

Sequence ID X_DroMel_CAF1
Location 1,973,225 – 1,973,465
Length 240
Max. P 0.945926
window1145 window1146 window1147 window1148

overview

Window 5

Location 1,973,225 – 1,973,345
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 93.33
Mean single sequence MFE -42.53
Consensus MFE -38.69
Energy contribution -39.47
Covariance contribution 0.78
Combinations/Pair 1.03
Mean z-score -1.87
Structure conservation index 0.91
SVM decision value 0.39
SVM RNA-class probability 0.715325
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1973225 120 + 22224390
UUCUUCCACACUCCAACUGCUGAUGGGAGGGCGAUCGGAUCCAUUUAUAUUCGAGGAUGGUAUUGCUAGGACCGGCGCAACCACUCCAGCUGAAACCACUGGCAGUGACACAGUGGGAGC
..(((((((......((((((..(((...(((..((((((........))))))(((((((..((((......))))..)))).))).)))....)))..))))))......))))))). ( -42.40)
>DroSec_CAF1 6106 120 + 1
UUCUUCCACACUCCAACUGCUGAUGGGUGGGCGAUCGGAUCCAUUUACAUUCGAGGAUGGUAUUGCUAGAACCGGCGCAACCAUUCCAGCUGAAACCACUGGCAGUGACACAGUGGGAGC
..(((((((......((((((..(((.(.(((..((((((........))))))(((((((..((((......))))..)))))))..))).)..)))..))))))......))))))). ( -42.70)
>DroYak_CAF1 6340 120 + 1
UUCUUCCACACUCCAACUGCUGAUGGGAGGGCGAUCGGUUCCAUUUACAUUGGAGGAUGGUAAUGCUAGAACCGGCGUAACCACUCCAGCUGAAACCACUGGCAAUGGCAAAGUGGAAGC
..(((((((...(((..((((..(((...(((.......((((.......))))(((((((.(((((......))))).)))).))).)))....)))..)))).)))....))))))). ( -42.50)
>consensus
UUCUUCCACACUCCAACUGCUGAUGGGAGGGCGAUCGGAUCCAUUUACAUUCGAGGAUGGUAUUGCUAGAACCGGCGCAACCACUCCAGCUGAAACCACUGGCAGUGACACAGUGGGAGC
..(((((((......((((((..(((...(((..((((((........))))))(((((((..((((......))))..)))).))).)))....)))..))))))......))))))). (-38.69 = -39.47 +   0.78)

alignment

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secondary structure

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dotplot

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Window 6

Location 1,973,265 – 1,973,385
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 92.78
Mean single sequence MFE -38.63
Consensus MFE -33.92
Energy contribution -34.03
Covariance contribution 0.11
Combinations/Pair 1.03
Mean z-score -1.73
Structure conservation index 0.88
SVM decision value -0.02
SVM RNA-class probability 0.520886
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1973265 120 + 22224390
CCAUUUAUAUUCGAGGAUGGUAUUGCUAGGACCGGCGCAACCACUCCAGCUGAAACCACUGGCAGUGACACAGUGGGAGCUAUUGCAAUUGGCAAGGGCAAUGUCAGGGGCAACGAAAGU
.........((((.(((((((..((((......))))..)))).)))((((....((((((.........)))))).)))).((((..((((((.......))))))..))))))))... ( -37.20)
>DroSec_CAF1 6146 120 + 1
CCAUUUACAUUCGAGGAUGGUAUUGCUAGAACCGGCGCAACCAUUCCAGCUGAAACCACUGGCAGUGACACAGUGGGAGCUAUUGCAAUUGGCAAGGGCAAUGUCAGGGGCAACGAAAGU
......((.((((.(((((((..((((......))))..))))))).((((....((((((.........)))))).)))).((((..((((((.......))))))..)))))))).)) ( -37.40)
>DroYak_CAF1 6380 120 + 1
CCAUUUACAUUGGAGGAUGGUAAUGCUAGAACCGGCGUAACCACUCCAGCUGAAACCACUGGCAAUGGCAAAGUGGAAGCUAUUGCAAUCGGCAAUGGUAAUGUCAGGGGCAACGAAAGU
((.......((((((..((((.(((((......))))).))))))))))((((..(((((.((....))..)))))..((((((((.....))))))))....))))))...((....)) ( -41.30)
>consensus
CCAUUUACAUUCGAGGAUGGUAUUGCUAGAACCGGCGCAACCACUCCAGCUGAAACCACUGGCAGUGACACAGUGGGAGCUAUUGCAAUUGGCAAGGGCAAUGUCAGGGGCAACGAAAGU
((............(((((((..((((......))))..)))).)))..((((..((((((.........))))))..(((.((((.....)))).)))....))))))...((....)) (-33.92 = -34.03 +   0.11)

alignment

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secondary structure

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dotplot

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Window 7

Location 1,973,305 – 1,973,425
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 93.61
Mean single sequence MFE -40.97
Consensus MFE -38.29
Energy contribution -38.30
Covariance contribution 0.01
Combinations/Pair 1.09
Mean z-score -2.40
Structure conservation index 0.93
SVM decision value 1.36
SVM RNA-class probability 0.945926
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1973305 120 + 22224390
CCACUCCAGCUGAAACCACUGGCAGUGACACAGUGGGAGCUAUUGCAAUUGGCAAGGGCAAUGUCAGGGGCAACGAAAGUGGUGAAGAUGUCGACAUAGCCGCCAGCACUGGCAUCGAAA
....(((((((....((((((.........)))))).)))).((((.....)))))))(.(((((((.(((.((....))(((....(((....))).))))))....))))))).)... ( -39.40)
>DroSec_CAF1 6186 120 + 1
CCAUUCCAGCUGAAACCACUGGCAGUGACACAGUGGGAGCUAUUGCAAUUGGCAAGGGCAAUGUCAGGGGCAACGAAAGUGGUGAAGAUGUUGACAUAGCCGCCAGCACUGGCAUUGAAA
....(((((((....((((((.........)))))).)))).((((.....)))))))(((((((((.(((.((....))(((....(((....))).))))))....)))))))))... ( -43.60)
>DroYak_CAF1 6420 120 + 1
CCACUCCAGCUGAAACCACUGGCAAUGGCAAAGUGGAAGCUAUUGCAAUCGGCAAUGGUAAUGUCAGGGGCAACGAAAGUGGUGAAGAUGUAGACAUAGCCGCUAGCACUGGCAUUGAAA
.....((((((((..(((((.((....))..)))))..((....))..)))))..)))(((((((((.(....)(..((((((....(((....))).))))))..).)))))))))... ( -39.90)
>consensus
CCACUCCAGCUGAAACCACUGGCAGUGACACAGUGGGAGCUAUUGCAAUUGGCAAGGGCAAUGUCAGGGGCAACGAAAGUGGUGAAGAUGUAGACAUAGCCGCCAGCACUGGCAUUGAAA
........(((((..((((((.........))))))..((....))..))))).....(((((((((.(((.((....))(((....(((....))).))))))....)))))))))... (-38.29 = -38.30 +   0.01)

alignment

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secondary structure

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dotplot

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Window 8

Location 1,973,345 – 1,973,465
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 94.17
Mean single sequence MFE -40.77
Consensus MFE -37.81
Energy contribution -38.03
Covariance contribution 0.23
Combinations/Pair 1.06
Mean z-score -1.60
Structure conservation index 0.93
SVM decision value 0.05
SVM RNA-class probability 0.558232
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1973345 120 + 22224390
UAUUGCAAUUGGCAAGGGCAAUGUCAGGGGCAACGAAAGUGGUGAAGAUGUCGACAUAGCCGCCAGCACUGGCAUCGAAAUCGGUGGGACCUCCGGCGUAGCCGCUUGAAUUGGCAAAGC
..((((......(((((((.(((((.(((((.((....))(((....(((....))).)))((((....))))((((....))))..).)))).))))).))).)))).....))))... ( -41.00)
>DroSec_CAF1 6226 120 + 1
UAUUGCAAUUGGCAAGGGCAAUGUCAGGGGCAACGAAAGUGGUGAAGAUGUUGACAUAGCCGCCAGCACUGGCAUUGAAAUCGGUGGGACCUCCGGCGUAGCCGCUUGAAUUGGCAAAGC
..((((......(((((((((((((((.(((.((....))(((....(((....))).))))))....))))))))....((((.(....).))))....))).)))).....))))... ( -42.40)
>DroYak_CAF1 6460 120 + 1
UAUUGCAAUCGGCAAUGGUAAUGUCAGGGGCAACGAAAGUGGUGAAGAUGUAGACAUAGCCGCUAGCACUGGCAUUGAAAUCGGUGAAACCUCCGGUGUAGCCGCUUGAAUUGGCAAUGC
((((((.....))))))((....((((((((......((((((....(((....))).)))))).((((((((((((....)))))......))))))).))).)))))....))..... ( -38.90)
>consensus
UAUUGCAAUUGGCAAGGGCAAUGUCAGGGGCAACGAAAGUGGUGAAGAUGUAGACAUAGCCGCCAGCACUGGCAUUGAAAUCGGUGGGACCUCCGGCGUAGCCGCUUGAAUUGGCAAAGC
..((((......(((((((((((((((.(((.((....))(((....(((....))).))))))....))))))))....((((.(....).))))....))).)))).....))))... (-37.81 = -38.03 +   0.23)

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 09:51:52 2006