Locus 4068

Sequence ID X_DroMel_CAF1
Location 10,766,095 – 10,766,231
Length 136
Max. P 0.999921
window6688 window6689 window6690

overview

Window 8

Location 10,766,095 – 10,766,191
Length 96
Sequences 5
Columns 97
Reading direction forward
Mean pairwise identity 93.38
Mean single sequence MFE -33.26
Consensus MFE -29.76
Energy contribution -30.20
Covariance contribution 0.44
Combinations/Pair 1.03
Mean z-score -4.36
Structure conservation index 0.89
SVM decision value 4.56
SVM RNA-class probability 0.999921
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10766095 96 + 22224390
ACAUCUUAAGUUGGUGGUAAACGAUGCAGCGGCAUCAAAAUAAUUUUGAUACUAUGUGCAUCAUGGAAAC-GAAACAGCGGUUGCACCGUUUACAAC
.((((.......))))(((((((.((((((.((((((((.....)))))).(((((.....)))))....-......)).)))))).)))))))... ( -32.60)
>DroSec_CAF1 15477 96 + 1
ACAUCUUAUGUUGGUGGUAAACGAUGCAGCGGCAUCAAAAUAAUUUUGAUACUAUGUGAAUCAUGGAAAC-GAAACUGCGGUUGCACCGUUUACAAC
.((((.......))))(((((((.((((((.((((((((.....)))))).(((((.....)))))....-......)).)))))).)))))))... ( -32.40)
>DroSim_CAF1 13662 96 + 1
ACAUCUUAAGUUGGUGGUAAACGAUGCAGCGGCAUCAAAAUAAUUUUGAUACUAUGUGCAUCAUGGAAAC-GAAACUGCGGUUGCACCGUUUACAAC
.((((.......))))(((((((.((((((.((((((((.....)))))).(((((.....)))))....-......)).)))))).)))))))... ( -32.40)
>DroEre_CAF1 13394 96 + 1
ACAUCCAAAGUUGGUG-UAAACGAUGCAGCGGCAUCAAAACAAUUUUGAUACUAUGUGCAUCAUGGAAACUGAAACGGCGGCUGCAUCGUUUACAAC
....(((....)))((-(((((((((((((.((((((((.....)))))).(((((.....)))))...........)).))))))))))))))).. ( -38.20)
>DroYak_CAF1 15199 97 + 1
ACAUCCAAAGUUGGUGGUAAACGAUGCAGCGGCAGCAAAAUAAUUUUGAUACUAUGUGCAGCAUGGAAACUGAAACGGCGGUCGCAUCGUUUACAAC
.((.(((....)))))(((((((((((.((.((..((((.....))))...(((((.....)))))...........)).)).)))))))))))... ( -30.70)
>consensus
ACAUCUUAAGUUGGUGGUAAACGAUGCAGCGGCAUCAAAAUAAUUUUGAUACUAUGUGCAUCAUGGAAAC_GAAACGGCGGUUGCACCGUUUACAAC
.((((.......))))(((((((.((((((.((((((((.....)))))).(((((.....)))))...........)).)))))).)))))))... (-29.76 = -30.20 +   0.44)

alignment

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secondary structure

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dotplot

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Window 9

Location 10,766,095 – 10,766,191
Length 96
Sequences 5
Columns 97
Reading direction reverse
Mean pairwise identity 93.38
Mean single sequence MFE -29.72
Consensus MFE -23.58
Energy contribution -23.58
Covariance contribution 0.00
Combinations/Pair 1.07
Mean z-score -3.67
Structure conservation index 0.79
SVM decision value 2.73
SVM RNA-class probability 0.996653
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10766095 96 - 22224390
GUUGUAAACGGUGCAACCGCUGUUUC-GUUUCCAUGAUGCACAUAGUAUCAAAAUUAUUUUGAUGCCGCUGCAUCGUUUACCACCAACUUAAGAUGU
((.((((((((((((...(((((.((-((....)))).)))....((((((((.....)))))))).)))))))))))))).))............. ( -28.20)
>DroSec_CAF1 15477 96 - 1
GUUGUAAACGGUGCAACCGCAGUUUC-GUUUCCAUGAUUCACAUAGUAUCAAAAUUAUUUUGAUGCCGCUGCAUCGUUUACCACCAACAUAAGAUGU
((.((((((((((((...((.(..((-((....))))..).....((((((((.....)))))))).)))))))))))))).))............. ( -27.60)
>DroSim_CAF1 13662 96 - 1
GUUGUAAACGGUGCAACCGCAGUUUC-GUUUCCAUGAUGCACAUAGUAUCAAAAUUAUUUUGAUGCCGCUGCAUCGUUUACCACCAACUUAAGAUGU
((.((((((((((((...((.((.((-((....)))).)).....((((((((.....)))))))).)))))))))))))).))............. ( -28.40)
>DroEre_CAF1 13394 96 - 1
GUUGUAAACGAUGCAGCCGCCGUUUCAGUUUCCAUGAUGCACAUAGUAUCAAAAUUGUUUUGAUGCCGCUGCAUCGUUUA-CACCAACUUUGGAUGU
..(((((((((((((((.((.(((.((((((...((((((.....))))))))))))....))))).)))))))))))))-))(((....))).... ( -37.90)
>DroYak_CAF1 15199 97 - 1
GUUGUAAACGAUGCGACCGCCGUUUCAGUUUCCAUGCUGCACAUAGUAUCAAAAUUAUUUUGCUGCCGCUGCAUCGUUUACCACCAACUUUGGAUGU
...((((((((((((.(.((.((...(((((..((((((....))))))..))))).....)).)).).))))))))))))..(((....))).... ( -26.50)
>consensus
GUUGUAAACGGUGCAACCGCAGUUUC_GUUUCCAUGAUGCACAUAGUAUCAAAAUUAUUUUGAUGCCGCUGCAUCGUUUACCACCAACUUAAGAUGU
((.((((((((((((...((.............(((.....))).((((((((.....)))))))).)))))))))))))).))............. (-23.58 = -23.58 +   0.00)

alignment

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secondary structure

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dotplot

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Window 0

Location 10,766,126 – 10,766,231
Length 105
Sequences 5
Columns 106
Reading direction reverse
Mean pairwise identity 92.62
Mean single sequence MFE -31.46
Consensus MFE -27.84
Energy contribution -27.56
Covariance contribution -0.28
Combinations/Pair 1.15
Mean z-score -2.05
Structure conservation index 0.88
SVM decision value 2.64
SVM RNA-class probability 0.995996
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10766126 105 - 22224390
AACGUGGAGUGAUUCACUUUGGAUCUCGUUGUUGAAGCUGGUUGUAAACGGUGCAACCGCUGUUUC-GUUUCCAUGAUGCACAUAGUAUCAAAAUUAUUUUGAUGC
..(((((((.(((((.....))))).)......(((((((((((((.....))))))))..)))))-...)))))).........((((((((.....)))))))) ( -31.50)
>DroSec_CAF1 15508 105 - 1
AACGUGGAGUGAUUCACUUUGGAUCUCGUUGAUGGAGCUGGUUGUAAACGGUGCAACCGCAGUUUC-GUUUCCAUGAUUCACAUAGUAUCAAAAUUAUUUUGAUGC
...(((((....)))))..((((((..(..((((((((((((((((.....)))))))..))))))-)))..)..))))))....((((((((.....)))))))) ( -34.70)
>DroSim_CAF1 13693 105 - 1
AACGUGGAGUGAUUCACAUUGGAUCUCGUUGAUGGAGCUGGUUGUAAACGGUGCAACCGCAGUUUC-GUUUCCAUGAUGCACAUAGUAUCAAAAUUAUUUUGAUGC
..(((((((.(((((.....))))).)...((((((((((((((((.....)))))))..))))))-))))))))).........((((((((.....)))))))) ( -33.90)
>DroEre_CAF1 13424 106 - 1
AACGUGAAGUGACUCACUUUGGAUUUCGUUGGUGAAGCCGGUUGUAAACGAUGCAGCCGCCGUUUCAGUUUCCAUGAUGCACAUAGUAUCAAAAUUGUUUUGAUGC
........(((..(((...((((.......(.((((((((((((((.....))))))))..)))))).).)))))))..)))...((((((((.....)))))))) ( -28.60)
>DroYak_CAF1 15230 106 - 1
AACGUGGAGUGAUUCACUUUGGAUCUCGUUGGUGAAGCUGGUUGUAAACGAUGCGACCGCCGUUUCAGUUUCCAUGCUGCACAUAGUAUCAAAAUUAUUUUGCUGC
..(((((((.(((((.....))))).).....((((((((((((((.....))))))))..))))))...))))))..(((((.((((.......)))).)).))) ( -28.60)
>consensus
AACGUGGAGUGAUUCACUUUGGAUCUCGUUGAUGAAGCUGGUUGUAAACGGUGCAACCGCAGUUUC_GUUUCCAUGAUGCACAUAGUAUCAAAAUUAUUUUGAUGC
..(((((((.(((((.....))))).)......(((((((((((((.....))))))))..)))))....)))))).........((((((((.....)))))))) (-27.84 = -27.56 +  -0.28)

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 11:15:37 2006