Locus 6631

Sequence ID 2L_DroMel_CAF1
Location 18,626,979 – 18,627,146
Length 167
Max. P 0.625935
window10576 window10577

overview

Window 6

Location 18,626,979 – 18,627,071
Length 92
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 78.64
Mean single sequence MFE -22.47
Consensus MFE -13.75
Energy contribution -14.03
Covariance contribution 0.28
Combinations/Pair 1.16
Mean z-score -1.53
Structure conservation index 0.61
SVM decision value 0.19
SVM RNA-class probability 0.625935
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18626979 92 + 22407834
-----------------CAAUGCUCC------CGAAUGCUCGGGA-CUUCUUCACGUUUCUCACAUCGGCUGAAGGCAUUUUUAUGCACUUCAUUUAUAAAUGAAAAGGCUUCAUC----
-----------------.((((((((------(((....))))))-...(((((.(((.........))))))))))))).....((..((((((....))))))...))......---- ( -21.50)
>DroSec_CAF1 104474 98 + 1
-----------------CAAUGCACCAUCCAUAGAGUUGUCGGGA-CUUCUUCACGUUUCCCACAUCGGCUGAAGGCAUUUUUAUGCACUUCAUUUAUAAAUGACAAGCCUUCAUC----
-----------------...............((..(((((((((-............))))........(((((((((....)))).))))).........)))))..)).....---- ( -19.00)
>DroSim_CAF1 106082 98 + 1
-----------------CAAUGCACCAUCCAUAGAGUUGUCGGGA-UUUCUUCACGUUUCCCACAUCGGCUGAAGGCAUUUUUAUGCACUUCAUUUAUAAAUGACAAGCUUUGUUC----
-----------------.............(((((((((((((((-............))))........(((((((((....)))).))))).........))).))))))))..---- ( -23.80)
>DroEre_CAF1 103469 96 + 1
-----------------CAAUGCUCC--CCACAAAGUUGUCGGGA-CUUCUUCACGUUUCUCACAUCGGUUGGAGGCAUUUUUAUGCACUUCAUUUAUAAAUGACAAGCCGUCAUC----
-----------------...((((((--(.(((....))).))))-.........((((((.((....)).))))))........)))............(((((.....))))).---- ( -19.40)
>DroYak_CAF1 104885 96 + 1
-----------------CAAUGCUCC--CCAUAAAGAUGUCGGGA-CUUCUUCACGUUUCUCACAUCGGUUGGAGGCAUUUUUAUGCACUUCAUUUAUAAAUGACAAGCCUUCAUC----
-----------------.(((((..(--(.((...(((((.(..(-(........))..)..))))).)).))..))))).....((...(((((....)))))...)).......---- ( -20.70)
>DroAna_CAF1 94535 118 + 1
AUGUUAAAGACUCGAAAGAAAGCCCU--UAAAAAAGUUGUCAGGCGGAGCUGCACGUUUCUCACAUCAGUUGAAGGCAUUUUUAUGCACUUCAUUUAUGAAUGACAGGCCUCCAGCUUCC
...........((....))..(((..--(((.....)))...)))(((((((...((((.(((..(((..(((((((((....)))).)))))....))).))).))))...))))))). ( -30.40)
>consensus
_________________CAAUGCUCC__CCAUAAAGUUGUCGGGA_CUUCUUCACGUUUCUCACAUCGGCUGAAGGCAUUUUUAUGCACUUCAUUUAUAAAUGACAAGCCUUCAUC____
....................................(((((((((....(.....)..))))........(((((((((....)))).))))).........)))))............. (-13.75 = -14.03 +   0.28)

alignment

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secondary structure

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dotplot

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Window 7

Location 18,627,035 – 18,627,146
Length 111
Sequences 5
Columns 115
Reading direction reverse
Mean pairwise identity 85.69
Mean single sequence MFE -32.15
Consensus MFE -19.12
Energy contribution -18.88
Covariance contribution -0.24
Combinations/Pair 1.05
Mean z-score -2.28
Structure conservation index 0.59
SVM decision value -0.00
SVM RNA-class probability 0.533330
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18627035 111 - 22407834
CCCAGCUACAGCUCCUCCAUUCCCA-UCCGCAUCCCAGCU---CCUGCGCUUUUCCCAGCUGAAGGGGCACAUAACUGGGAUGAAGCCUUUUCAUUUAUAAAUGAAGUGCAUAAA
...(((....)))............-....((((((((((---(((..(((......)))...)))))).......)))))))..((..(((((((....))))))).))..... ( -28.61)
>DroSec_CAF1 104536 105 - 1
CCCAGCUACAGCUCCUCCAUUCCCA-UCCUGUGC---------CCUGCGCUUUUCCCAGCCGAAAGGGCACAAAACUGGGAUGAAGGCUUGUCAUUUAUAAAUGAAGUGCAUAAA
....((.((....(((.(((.((((-...(((((---------(((..(((......)))....))))))))....))))))).)))....(((((....))))).))))..... ( -32.10)
>DroSim_CAF1 106144 105 - 1
CCCAGCUACAGCUCCUCCAUUCCCA-UCCUUUGC---------CCUGCGCUUUUCCCAGCCGAAAGGGCACAAAACUGGGAACAAAGCUUGUCAUUUAUAAAUGAAGUGCAUAAA
...(((....)))......((((((-.....(((---------(((..(((......)))....))))))......))))))....((...(((((....)))))...))..... ( -26.70)
>DroEre_CAF1 103529 115 - 1
CCCAGCUACGGCUCCUCCAUGCCAGCUCCUUUGCCCAGCUUGCCCUGCGCUUUUCCCAGCUGGAGGGGCACAAAACUGGGAUGACGGCUUGUCAUUUAUAAAUGAAGUGCAUAAA
(((((.....(((((((((.((.((((.........)))).)).....(((......))))))))))))......)))))......((...(((((....)))))...))..... ( -37.20)
>DroYak_CAF1 104945 115 - 1
CCCAGCUACAGCUCCUCCGUCCCAGCUCCUUUGCCCAGGGUGCCCUGCGCUUUUCCCAGCUGGAUGGACACAAAACUGGGAUGAAGGCUUGUCAUUUAUAAAUGAAGUGCAUAAA
(((((..........(((((((.((((.....((.((((....)))).)).......))))))))))).......)))))......((...(((((....)))))...))..... ( -36.13)
>consensus
CCCAGCUACAGCUCCUCCAUUCCCA_UCCUUUGCCCAG_____CCUGCGCUUUUCCCAGCUGAAAGGGCACAAAACUGGGAUGAAGGCUUGUCAUUUAUAAAUGAAGUGCAUAAA
...(((....)))................................((((((..((((((((....))........))))))..........(((((....))))))))))).... (-19.12 = -18.88 +  -0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:15:58 2006