Locus 4193

Sequence ID 2L_DroMel_CAF1
Location 12,008,999 – 12,009,110
Length 111
Max. P 0.930935
window6629 window6630

overview

Window 9

Location 12,008,999 – 12,009,110
Length 111
Sequences 6
Columns 112
Reading direction forward
Mean pairwise identity 71.75
Mean single sequence MFE -34.75
Consensus MFE -18.42
Energy contribution -19.40
Covariance contribution 0.98
Combinations/Pair 1.29
Mean z-score -1.65
Structure conservation index 0.53
SVM decision value 0.57
SVM RNA-class probability 0.785692
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12008999 111 + 22407834
AGAUUGUACUGCUGAUACUCUUCACCUGGUUGUGGGCCACUCCGUUCUCCGUGCUGCCAUUGUUCCAGAUCUGGGGACGUUACCAGCCGGGUGAGAA-GUGAAUUCAUGAAG
...............((((..(((((((((((.(((((((..........)))..)))...(((((.......)))))....))))))))))))..)-)))........... ( -34.00)
>DroVir_CAF1 583 103 + 1
AGAUCAUUAUGUGCAUCAUAUUCACCUGGCUGUGGGCAACGCCGUUUUCGGUGCUGCCCCUCUUCCAGAUCUGGGGUCGCUACCAGCCAGGUAAC---------UCUUCCCA
.((....((((.....)))).))(((((((((.(((((.(((((....))))).)))))...(((((....))))).......)))))))))...---------........ ( -39.30)
>DroEre_CAF1 556 111 + 1
AAAUUGUGCUGCUAAUACUCUUCACCUGGCUGUGGGCCGCUCCGUUCUCCGUGCUGCCAUUGUUCCAGAUCUGGGGACGUUACCAGCCGGGUAAGAA-GUGGAUACAUCAGG
....(((((..((.....((((.(((((((((.((((.((..((.....)).)).)))...(((((.......)))))....)))))))))))))))-)..).))))..... ( -38.30)
>DroWil_CAF1 556 108 + 1
AAAUUCUUUUGUGUAUUAUAUUUACCUGGCUAUGGGCCACACCCUUCUCGGUAUUGCCAUUCUUUCAGAUAUGGGGGCGUUAUCAGCCUGGUAAGCAAUUG----CAUAGAA
.......((((((((.....((((((.((((..(((.....))).....((((.((((.(((..........))))))).)))))))).))))))....))----)))))). ( -31.10)
>DroMoj_CAF1 579 107 + 1
AGAUAAUUUUGUGUAUUAUUUUCACCUGGAUGUGGGCAACGCCCUUCUCGGUGCUGCCGCUCUUUCAGAUCUGGGGUCGCUAUCUGCCAGGUGAGAU-GU----UCAUGAAA
......(((..((.((...((((((((((.....((((.((((......)))).))))((..(..((....))..)..))......)))))))))).-))----.))..))) ( -36.30)
>DroAna_CAF1 557 104 + 1
AGAUAGUCCUGUUGAUCAUCUUCACCUGGCUGUGGGCCACCCCCUUUUCGGUGCUACCUUUAUUCCAAAUUUGGGGACGUUAUCAGCCCGGUAAGAA-GCGGGUA-------
.......((((((.....((((.(((.(((((.((..((((........))))...))....(((((....))))).......))))).))))))))-)))))..------- ( -29.50)
>consensus
AGAUUGUUCUGUGGAUAAUCUUCACCUGGCUGUGGGCCACGCCCUUCUCGGUGCUGCCAUUCUUCCAGAUCUGGGGACGUUACCAGCCAGGUAAGAA_GUG___UCAUCAAA
..................((((.(((((((((..(((...(((......((.....))......(((....)))))).)))..)))))))))))))................ (-18.42 = -19.40 +   0.98)

alignment

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secondary structure

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dotplot

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Window 0

Location 12,008,999 – 12,009,110
Length 111
Sequences 6
Columns 112
Reading direction reverse
Mean pairwise identity 71.75
Mean single sequence MFE -31.62
Consensus MFE -20.87
Energy contribution -20.48
Covariance contribution -0.39
Combinations/Pair 1.40
Mean z-score -1.50
Structure conservation index 0.66
SVM decision value 1.21
SVM RNA-class probability 0.930935
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12008999 111 - 22407834
CUUCAUGAAUUCAC-UUCUCACCCGGCUGGUAACGUCCCCAGAUCUGGAACAAUGGCAGCACGGAGAACGGAGUGGCCCACAACCAGGUGAAGAGUAUCAGCAGUACAAUCU
((((.......(((-(((...((((((((.((..((..(((....))).))..)).)))).))).)...))))))(((........))))))).((((.....))))..... ( -28.00)
>DroVir_CAF1 583 103 - 1
UGGGAAGA---------GUUACCUGGCUGGUAGCGACCCCAGAUCUGGAAGAGGGGCAGCACCGAAAACGGCGUUGCCCACAGCCAGGUGAAUAUGAUGCACAUAAUGAUCU
..(((...---------.(((((((((((.........(((....))).....(((((((.(((....))).))))))).))))))))))).((((.....))))....))) ( -42.50)
>DroEre_CAF1 556 111 - 1
CCUGAUGUAUCCAC-UUCUUACCCGGCUGGUAACGUCCCCAGAUCUGGAACAAUGGCAGCACGGAGAACGGAGCGGCCCACAGCCAGGUGAAGAGUAUUAGCAGCACAAUUU
..((.(((....((-(..(((((.(((((.....((..(((....))).))...(((.((.((.....))..)).)))..))))).)))))..)))....))).))...... ( -33.60)
>DroWil_CAF1 556 108 - 1
UUCUAUG----CAAUUGCUUACCAGGCUGAUAACGCCCCCAUAUCUGAAAGAAUGGCAAUACCGAGAAGGGUGUGGCCCAUAGCCAGGUAAAUAUAAUACACAAAAGAAUUU
((((..(----(....))(((((.(((((.....(((.((((.((.....))))))..(((((......))))))))...))))).)))))..............))))... ( -25.30)
>DroMoj_CAF1 579 107 - 1
UUUCAUGA----AC-AUCUCACCUGGCAGAUAGCGACCCCAGAUCUGAAAGAGCGGCAGCACCGAGAAGGGCGUUGCCCACAUCCAGGUGAAAAUAAUACACAAAAUUAUCU
........----..-...(((((((((((((...........))))).....(.((((((.((......)).)))))))....))))))))..................... ( -30.00)
>DroAna_CAF1 557 104 - 1
-------UACCCGC-UUCUUACCGGGCUGAUAACGUCCCCAAAUUUGGAAUAAAGGUAGCACCGAAAAGGGGGUGGCCCACAGCCAGGUGAAGAUGAUCAACAGGACUAUCU
-------.......-...(((((.(((((....(..((((...(((((.............)))))..))))..).....))))).)))))(((((.((.....)).))))) ( -30.32)
>consensus
UUUCAUGA___CAC_UUCUUACCCGGCUGAUAACGUCCCCAGAUCUGGAAGAAUGGCAGCACCGAGAACGGAGUGGCCCACAGCCAGGUGAAGAUAAUAAACAGAACAAUCU
..................(((((.(((((.........(((....)))......(((.((.((.....))..)).)))..))))).)))))..................... (-20.87 = -20.48 +  -0.39)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:12:07 2006