Locus 7084

Sequence ID 2L_DroMel_CAF1
Location 19,814,607 – 19,814,747
Length 140
Max. P 0.808228
window11315 window11316

overview

Window 5

Location 19,814,607 – 19,814,711
Length 104
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 79.31
Mean single sequence MFE -24.54
Consensus MFE -6.39
Energy contribution -9.60
Covariance contribution 3.21
Combinations/Pair 1.10
Mean z-score -2.12
Structure conservation index 0.26
SVM decision value 0.44
SVM RNA-class probability 0.735508
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19814607 104 - 22407834
ACAAGGUAAAAGCCAAACUGAAA--GUUGAA--------------UCAGCUUUUACCUAUGCGUUUCAUCUUAGCACCAUGAGUCAUUUUAAAAUAAAAGGAAAAGGGUAGCAGAAUAUU
...((((((((((..(((.....--)))...--------------...)))))))))).((((((.......)))(((.....((.(((((...))))).))....))).)))....... ( -20.00)
>DroSec_CAF1 81171 118 - 1
ACAAGGUAAAAGCCAAAAUGAAA--GUUUAAACACUUUUCACAAGUCAGCUUUUACCUAUGCGUUUAAUCUCAGAUCCACGAGUCAUUUUAAAAUAAAAAGAAAAAGCUUGCAUAAUAUU
....(((((((((.....(((((--((......)).))))).......)))))))))(((((.(((((.(((........))).....))))).....(((......))))))))..... ( -19.90)
>DroSim_CAF1 83208 118 - 1
ACAAGGUAAGAGCCAAACUGAAA--GUUGAAACACUUUUCAACAGUCAGCUUUUACCUAUGCGUUUAAUCGCAGAUCCACGAGUCAUUUUAAAAUAAAAAUAAAAGGCUUGCAGAAUAUU
...((((((((((.....(((..--(((((((....)))))))..))))))))))))).((((......))))..((..((((((.(((((.........)))))))))))..))..... ( -32.50)
>DroEre_CAF1 83670 120 - 1
ACAAGGAAAAAGACAAACUGAAAGAGUUGAAACACUUUUCAGCAGUCAGCUUUUAACUAGGCGUUUAAUCUCAGAUGUACUAGUAGUUGCUAAAUUAAAAUGAAAGGCUUGCAGAAUAUU
.((((......(((...(((((.((((......)))))))))..)))(((..(((.((((((((((......)))))).)))))))..)))................))))......... ( -23.20)
>DroYak_CAF1 90998 120 - 1
ACAAGGAAAAAGACAAGCCGAAAGAGUUGAAACACUUUUCAACAGUAAGCUUUCAGCUAUGCGUUUAAUCUCUGAUGCGCGAGUAGUUUUAAAAUUAAAAUGUAAGGCUUGCUGAACAUU
....(((((......((((....).))).......)))))..((((((((((((.(((.(((((............)))))))).((((((....))))))).)))))))))))...... ( -27.12)
>consensus
ACAAGGUAAAAGCCAAACUGAAA__GUUGAAACACUUUUCAACAGUCAGCUUUUACCUAUGCGUUUAAUCUCAGAUCCACGAGUCAUUUUAAAAUAAAAAUAAAAGGCUUGCAGAAUAUU
...(((((((((.....((((....(((((((....)))))))..))))))))))))).............................................................. ( -6.39 =  -9.60 +   3.21)

alignment

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secondary structure

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dotplot

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Window 6

Location 19,814,647 – 19,814,747
Length 100
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 82.22
Mean single sequence MFE -26.48
Consensus MFE -10.46
Energy contribution -14.14
Covariance contribution 3.68
Combinations/Pair 1.24
Mean z-score -2.78
Structure conservation index 0.39
SVM decision value 0.64
SVM RNA-class probability 0.808228
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19814647 100 + 22407834
AUGGUGCUAAGAUGAAACGCAUAGGUAAAAGCUGA--------------UUCAAC--UUUCAGUUUGGCUUUUACCUUGUA----UUAUCUAGUCCCAUUUUCAAUUUCUUUCAUCGUUU
((((..(((.(((((.(((...((((((((((..(--------------......--.......)..))))))))))))).----))))))))..))))..................... ( -28.12)
>DroSec_CAF1 81211 118 + 1
GUGGAUCUGAGAUUAAACGCAUAGGUAAAAGCUGACUUGUGAAAAGUGUUUAAAC--UUUCAUUUUGGCUUUUACCUUGUAUUUAUUAUCUAGUCCCAUUUUCAAUUUCUUUCAUCGUUU
(.((((..((...((((..((.((((((((((..(...((((((.((......))--)))))).)..))))))))))))..))))...))..)))))....................... ( -33.40)
>DroSim_CAF1 83248 114 + 1
GUGGAUCUGCGAUUAAACGCAUAGGUAAAAGCUGACUGUUGAAAAGUGUUUCAAC--UUUCAGUUUGGCUCUUACCUUGUA----UUAUCUAGUCCCAUUUUCAAUUUCUUUCAUCGUUU
((((..(((.(((.....(((.(((((((((((((..(((((((....)))))))--..))))))).....))))))))).----..))))))..))))..................... ( -27.40)
>DroEre_CAF1 83710 116 + 1
GUACAUCUGAGAUUAAACGCCUAGUUAAAAGCUGACUGCUGAAAAGUGUUUCAACUCUUUCAGUUUGUCUUUUUCCUUGUA----UUAUCUGCGUCCAUUUUCAAUUUCUUUCAUCGUUU
.......(((((....((((.((((...(((..(((.((((((((((......))).)))))))..)))......)))..)----)))...))))....)))))................ ( -20.10)
>DroYak_CAF1 91038 116 + 1
GCGCAUCAGAGAUUAAACGCAUAGCUGAAAGCUUACUGUUGAAAAGUGUUUCAACUCUUUCGGCUUGUCUUUUUCCUUGUA----UUAUCUGUGCCCAUUUUCAAUUUCUUUCAUCGUUU
(((((.(((.((..(((.(((.(((((((((......(((((((....))))))).)))))))))))).))).)).)))..----.....)))))......................... ( -23.40)
>consensus
GUGGAUCUGAGAUUAAACGCAUAGGUAAAAGCUGACUGUUGAAAAGUGUUUCAAC__UUUCAGUUUGGCUUUUACCUUGUA____UUAUCUAGUCCCAUUUUCAAUUUCUUUCAUCGUUU
((((..(((.(((.....(((.(((((((((((((..(((((((.............))))))))))))))))))))))).......))))))..))))..................... (-10.46 = -14.14 +   3.68)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:27:11 2006