Locus 7227

Sequence ID 3L_DroMel_CAF1
Location 19,375,397 – 19,375,539
Length 142
Max. P 0.983901
window11749 window11750

overview

Window 9

Location 19,375,397 – 19,375,516
Length 119
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 90.06
Mean single sequence MFE -29.78
Consensus MFE -23.65
Energy contribution -24.18
Covariance contribution 0.53
Combinations/Pair 1.19
Mean z-score -2.19
Structure conservation index 0.79
SVM decision value -0.01
SVM RNA-class probability 0.528098
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19375397 119 - 23771897
GUGAGUUCUGGCAUAAAUUAAGUGUUUAUUUUGGCUUGAGCUGGGAUAUCGUUACAUUUUAUGCAUGCCAAACUU-CCUCGGCUGGUCAUCAUAAAUUUAUUCUGUGUAGCCUGCUCUUA
(..((((.((((((..((.((((((.(((((..((....))..))))).....)))))).))..)))))))))).-.)..(((.(((...((((.........))))..))).))).... ( -31.50)
>DroSec_CAF1 8326 119 - 1
GUGAGUUCUAGCAUAAAUUAAGUGUUUAUUUUGGCUUCAGCUGGGAUGUCGUUACAUUUUAUGCAUGCCAAACUU-CCUCGGCUGGUCAUCAUAAAUUUAUUCUGUCUAGCCUGCUUUUA
(..((((...((((..((.((((((.(((((..((....))..))))).....)))))).))..))))..)))).-.)..((((((.((..(((....)))..)).))))))........ ( -29.40)
>DroSim_CAF1 5724 119 - 1
GUGAGUUCUGGCAUAAAUUAAGUGUUUAUUUUGGCUUCAGCUGGGAUAUCGUUACAUUUUAUGCAUGCCAAACUU-CCUCGGCUGGUCAUCAUAAAUUUAUUCUGUGUAGCCUGCUUUUA
(..((((.((((((..((.((((((.(((((..((....))..))))).....)))))).))..)))))))))).-.)..(((.(((...((((.........))))..))).))).... ( -31.50)
>DroEre_CAF1 12200 119 - 1
CUGAGUUCUGGCAUAAAUUAAGUGUUUAUUUUGGCUUCAGUUGGGAUAUCGUUACAUUUUAUGCAUGCCAAACUU-CCUCGGCUGGUCAUCAUAAAUUUAUUCUGUGUAGCAUGCUUUUA
.........(((((............(((((..((....))..)))))..(((((((((((((.((((((..(..-....)..))).)))))))))........)))))))))))).... ( -25.90)
>DroYak_CAF1 41301 119 - 1
CUGAGUUCUGGCAUAAAUUAAGUGUUUAUUUUGGCUUCAGCUGGGAUAUCGUUACAUUUUAUGCUUGCCAAACUU-CCUCGGCUGGUCAUCAUAAAUUUAUUCUGUGCAGCUUGCUUUUA
..(((((.(((((...((.((((((.(((((..((....))..))))).....)))))).))...))))))))))-....(((((..((..(((....)))..))..)))))........ ( -27.60)
>DroAna_CAF1 15215 106 - 1
-----CUCUGGCAUAAAUUAAGUGUUUAUUCUGGCUUCAGCUGGGAUAUCGUAACAUUUUAUGCAUGCCAAGCUCCCCUCUGCUGGCCAUCAUAAAUUUGUU----GCCGCCU---UU--
-----....(((..............(((((..((....))..)))))..((((((.((((((.((((((.((........))))).)))))))))..))))----)).))).---..-- ( -32.80)
>consensus
GUGAGUUCUGGCAUAAAUUAAGUGUUUAUUUUGGCUUCAGCUGGGAUAUCGUUACAUUUUAUGCAUGCCAAACUU_CCUCGGCUGGUCAUCAUAAAUUUAUUCUGUGUAGCCUGCUUUUA
..(((((.((((((..((.((((((.(((((..((....))..))))).....)))))).))..))))))))))).....(((((..((..(((....)))..))..)))))........ (-23.65 = -24.18 +   0.53)

alignment

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secondary structure

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dotplot

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Window 0

Location 19,375,437 – 19,375,539
Length 102
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 79.67
Mean single sequence MFE -25.50
Consensus MFE -20.76
Energy contribution -21.96
Covariance contribution 1.20
Combinations/Pair 1.10
Mean z-score -2.31
Structure conservation index 0.81
SVM decision value 1.96
SVM RNA-class probability 0.983901
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19375437 102 - 23771897
-----------------ACAUUCACACUCAUGGACUAGUUGUGAGUUCUGGCAUAAAUUAAGUGUUUAUUUUGGCUUGAGCUGGGAUAUCGUUACAUUUUAUGCAUGCCAAACUU-CCUC
-----------------........(((((..(.....)..)))))..((((((..((.((((((.(((((..((....))..))))).....)))))).))..)))))).....-.... ( -26.30)
>DroSec_CAF1 8366 102 - 1
-----------------ACACUCGCACUCAUGGACUGGUUGUGAGUUCUAGCAUAAAUUAAGUGUUUAUUUUGGCUUCAGCUGGGAUGUCGUUACAUUUUAUGCAUGCCAAACUU-CCUC
-----------------..(((((((..((.....))..)))))))....(((((((....(((..(((((..((....))..)))))....)))..)))))))...........-.... ( -25.00)
>DroSim_CAF1 5764 102 - 1
-----------------ACACUCACACUCACGGACUGGUUGUGAGUUCUGGCAUAAAUUAAGUGUUUAUUUUGGCUUCAGCUGGGAUAUCGUUACAUUUUAUGCAUGCCAAACUU-CCUC
-----------------..(((((((..((.....))..)))))))..((((((..((.((((((.(((((..((....))..))))).....)))))).))..)))))).....-.... ( -30.00)
>DroYak_CAF1 41341 119 - 1
CCAACACCCACACACUCGCACUCACACUCAUGGACUAUUUCUGAGUUCUGGCAUAAAUUAAGUGUUUAUUUUGGCUUCAGCUGGGAUAUCGUUACAUUUUAUGCUUGCCAAACUU-CCUC
.........................(((((.(((....))))))))..(((((...((.((((((.(((((..((....))..))))).....)))))).))...))))).....-.... ( -23.80)
>DroAna_CAF1 15246 80 - 1
------------------------CACUC----------------CUCUGGCAUAAAUUAAGUGUUUAUUCUGGCUUCAGCUGGGAUAUCGUAACAUUUUAUGCAUGCCAAGCUCCCCUC
------------------------.....----------------...((((((..((.((((((((((((..((....))..)))))....))))))).))..)))))).......... ( -22.40)
>consensus
_________________ACACUCACACUCAUGGACUAGUUGUGAGUUCUGGCAUAAAUUAAGUGUUUAUUUUGGCUUCAGCUGGGAUAUCGUUACAUUUUAUGCAUGCCAAACUU_CCUC
.........................((((((((.....))))))))..((((((..((.((((((.(((((..((....))..))))).....)))))).))..)))))).......... (-20.76 = -21.96 +   1.20)

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 12:41:34 2006