Locus 7180

Sequence ID X_DroMel_CAF1
Location 17,993,990 – 17,994,209
Length 219
Max. P 0.799561
window11728 window11729 window11730

overview

Window 8

Location 17,993,990 – 17,994,102
Length 112
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 72.73
Mean single sequence MFE -30.02
Consensus MFE -17.04
Energy contribution -18.10
Covariance contribution 1.06
Combinations/Pair 1.07
Mean z-score -1.69
Structure conservation index 0.57
SVM decision value 0.35
SVM RNA-class probability 0.698489
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17993990 112 + 22224390
GACGGGACUGCAUCUGAAAUUAACAGAAUUUAUUUCAUUGCAUACCACGGAGCCCCCUU-CGCCAC-------CUUCCACCGCUUCGCUCUCCUUUUUCUCUGGUGGCAGAGAGGAGAAA
...((...((((..((((((...........)))))).))))..)).((((((......-......-------........)))))).(((((....((((((....))))))))))).. ( -28.05)
>DroSec_CAF1 6069 120 + 1
GGCGGGAUUGCAUCUGAAAUUAACAGAAUUUAAUUCAUUGCAUACUACGGAGCCCCCUUUCCCCACCUUACCCCUUCCACCGCUUCGCUCUCCUUUUUCUCUGGAGGCAGAGAGGAGAAA
(((((...((((..((((.((((......)))))))).))))......((((......)))).................)))))....(((((....((((((....))))))))))).. ( -28.90)
>DroEre_CAF1 7059 89 + 1
GGCGGGACUGCAUCUGGAAUUAACAGAAUUUAUUUCAUUGCAUAGCA-------------------------------ACCCCUUCCCGCCUCCUUUUCUCUGGCGGAAGAGAGGAGGUA
(((((((.....((((.......))))..........((((...)))-------------------------------).....))))))).((((((((((......)))))))))).. ( -33.10)
>consensus
GGCGGGACUGCAUCUGAAAUUAACAGAAUUUAUUUCAUUGCAUACCACGGAGCCCCCUU_C_CCAC_______CUUCCACCGCUUCGCUCUCCUUUUUCUCUGGAGGCAGAGAGGAGAAA
(((((...((((..((((((...........)))))).))))......((.....))......................))))).........((((((((((....))))))))))... (-17.04 = -18.10 +   1.06)

alignment

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secondary structure

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dotplot

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Window 9

Location 17,994,030 – 17,994,142
Length 112
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 75.00
Mean single sequence MFE -24.13
Consensus MFE -15.65
Energy contribution -16.10
Covariance contribution 0.45
Combinations/Pair 1.06
Mean z-score -1.58
Structure conservation index 0.65
SVM decision value 0.61
SVM RNA-class probability 0.799561
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17994030 112 + 22224390
CAUACCACGGAGCCCCCUU-CGCCAC-------CUUCCACCGCUUCGCUCUCCUUUUUCUCUGGUGGCAGAGAGGAGAAAAAAUACAAAGGCAACUUAUUUUUAUGCCAUUCGCGUCAAC
.......(((((....)))-))....-------.......(((.....(((((....((((((....)))))))))))...........((((...........))))....)))..... ( -24.70)
>DroSec_CAF1 6109 120 + 1
CAUACUACGGAGCCCCCUUUCCCCACCUUACCCCUUCCACCGCUUCGCUCUCCUUUUUCUCUGGAGGCAGAGAGGAGAAAAAAUACAAAGGCAACUUAUUUUUAUGCCAUUCGCGUCAAC
........(((((............................)))))(((((((....((((((....)))))))))))...........((((...........))))....))...... ( -23.69)
>DroEre_CAF1 7099 89 + 1
CAUAGCA-------------------------------ACCCCUUCCCGCCUCCUUUUCUCUGGCGGAAGAGAGGAGGUAAAAUACAAAGGCAACUUAUUUUUAUGCCAUUCGCGUCAAC
....((.-------------------------------..........(((((((((..((.....))..)))))))))..........((((...........))))....))...... ( -24.00)
>consensus
CAUACCACGGAGCCCCCUU_C_CCAC_______CUUCCACCGCUUCGCUCUCCUUUUUCUCUGGAGGCAGAGAGGAGAAAAAAUACAAAGGCAACUUAUUUUUAUGCCAUUCGCGUCAAC
........................................(((..........((((((((((....))))))))))............((((...........))))....)))..... (-15.65 = -16.10 +   0.45)

alignment

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secondary structure

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dotplot

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Window 0

Location 17,994,102 – 17,994,209
Length 107
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 87.39
Mean single sequence MFE -25.40
Consensus MFE -21.62
Energy contribution -21.73
Covariance contribution 0.11
Combinations/Pair 1.05
Mean z-score -1.62
Structure conservation index 0.85
SVM decision value 0.02
SVM RNA-class probability 0.545675
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17994102 107 + 22224390
AAAUACAAAGGCAACUUAUUUUUAUGCCAUUCGCGUCAACCGCAGAAGGCAACAGAGGAAAACGCCCCCAC---CAGCC--C--------GCAUCCACCCCCUUUGGCACACACAGGGUU
.........(((............((((.((((((.....))).)))))))...(.((........)))..---..)))--.--------.........((((.((.....)).)))).. ( -23.20)
>DroSec_CAF1 6189 111 + 1
AAAUACAAAGGCAACUUAUUUUUAUGCCAUUCGCGUCAACCGCAGAAGGCAACAGAGGGAACCGCCCCCACAUCCAGCCCCC--------ACAUCCACC-CCUUUGGCACACACAGGGUU
.........(((............((((.((((((.....))).))))))).....(((.......))).......)))...--------........(-(((.((.....)).)))).. ( -26.70)
>DroEre_CAF1 7148 116 + 1
AAAUACAAAGGCAACUUAUUUUUAUGCCAUUCGCGUCAACCGCAGAAGGCAACACAGGGAAACGCCCCCAC----AGCCCCCAGUAUCCAGUAUCCAACCCCCUUGGCACACACAGGGUU
..((((...(((............((((.((((((.....))).))))))).....(((.......)))..----.)))....)))).............((((((.....)).)))).. ( -26.30)
>consensus
AAAUACAAAGGCAACUUAUUUUUAUGCCAUUCGCGUCAACCGCAGAAGGCAACAGAGGGAAACGCCCCCAC___CAGCCCCC________GCAUCCACCCCCUUUGGCACACACAGGGUU
.........(((............((((.((((((.....))).))))))).....(((.......))).......))).....................((((((.....)).)))).. (-21.62 = -21.73 +   0.11)

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 12:32:08 2006