Locus 8530

Sequence ID X_DroMel_CAF1
Location 21,126,585 – 21,126,696
Length 111
Max. P 0.993534
window14039 window14040

overview

Window 9

Location 21,126,585 – 21,126,696
Length 111
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 68.45
Mean single sequence MFE -21.06
Consensus MFE -9.65
Energy contribution -11.49
Covariance contribution 1.84
Combinations/Pair 1.17
Mean z-score -2.39
Structure conservation index 0.46
SVM decision value 2.41
SVM RNA-class probability 0.993534
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21126585 111 + 22224390
GGUCGUGUUUUGUUAUAUUUAAUUUUAAUUGUUUACUGGACACAUUUA-------AUUC-GAAAACCUUAGCUAGGUUUUUUACCACCUAGCGUUU-UUAUCGAUGCCGAUUGCUCGAUG
....(((((..((.(((.(((....))).)))..))..))))).....-------....-((((((....(((((((........)))))))))))-))(((((.((.....))))))). ( -24.80)
>DroSec_CAF1 7712 108 + 1
CGCCGAGUUUUAUUACAUUUACUUUUAAUUGGUUACUUGGCACACUUA-------AUUC-GAAAACCUUAGCUAGGCUC---CCCACCUAGCGUUU-UUAUCGAUACCGAUUACUCAAUU
.(((((((.......((.(((....))).))...))))))).......-------....-((((((....((((((...---....))))))))))-))((((....))))......... ( -22.10)
>DroSim_CAF1 7617 108 + 1
CGCCGAGUUUUCUUACAUUUACUUUUAAUUGGUUACUUGGCACACUUA-------AUUC-GAAAUCCUUAGCUAGGCUC---CCCACCUAGCGUUU-UUAUCGAUACCGAUUACUCGAUU
.(((((((..((..................))..))))))).......-------..((-((........((((((...---....))))))((..-..((((....)))).)))))).. ( -26.07)
>DroEre_CAF1 7116 110 + 1
----GAAU--UUUUUAAUGUACUUUUAAGCUGCUUUUUUAAGCAAUUAAAUUUCAAUUUAAAAAACCUUAGCUAGGUUU---CCCACCUAUCCAUU-UUAUCGAUUCCGAUUACUCUGUG
----...(--(((((((......(((((..(((((....))))).))))).......)))))))).......(((((..---...)))))..(((.-..((((....))))......))) ( -14.62)
>DroYak_CAF1 8051 86 + 1
----AUAU--CUUCUA-----C------------AUUUGAAACAUUUA-------AUUU-GAGAACAUUAGCUAGGUUU---CCCACCUAGCUAUUCUUAUCGAUUCCGAUUACUCUGUG
----....--....((-----(------------(.............-------...(-(((((...(((((((((..---...)))))))))))))))(((....)))......)))) ( -17.70)
>consensus
_G_CGAGUUUUUUUAAAUUUACUUUUAAUUGGUUACUUGACACACUUA_______AUUC_GAAAACCUUAGCUAGGUUU___CCCACCUAGCGUUU_UUAUCGAUACCGAUUACUCGAUG
.(((((((..........................))))))).............................(((((((........))))))).......((((....))))......... ( -9.65 = -11.49 +   1.84)

alignment

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secondary structure

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dotplot

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Window 0

Location 21,126,585 – 21,126,696
Length 111
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 68.45
Mean single sequence MFE -20.76
Consensus MFE -13.12
Energy contribution -13.92
Covariance contribution 0.80
Combinations/Pair 1.29
Mean z-score -1.54
Structure conservation index 0.63
SVM decision value 0.94
SVM RNA-class probability 0.885562
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21126585 111 - 22224390
CAUCGAGCAAUCGGCAUCGAUAA-AAACGCUAGGUGGUAAAAAACCUAGCUAAGGUUUUC-GAAU-------UAAAUGUGUCCAGUAAACAAUUAAAAUUAAAUAUAACAAAACACGACC
..((((....))))..((((.((-....(((((((........))))))).....)).))-)).(-------(((.(((.........))).))))........................ ( -19.80)
>DroSec_CAF1 7712 108 - 1
AAUUGAGUAAUCGGUAUCGAUAA-AAACGCUAGGUGGG---GAGCCUAGCUAAGGUUUUC-GAAU-------UAAGUGUGCCAAGUAACCAAUUAAAAGUAAAUGUAAUAAAACUCGGCG
.(((((....))))).((((.((-....(((((((...---..))))))).....)).))-))..-------.......(((.(((..........................))).))). ( -22.37)
>DroSim_CAF1 7617 108 - 1
AAUCGAGUAAUCGGUAUCGAUAA-AAACGCUAGGUGGG---GAGCCUAGCUAAGGAUUUC-GAAU-------UAAGUGUGCCAAGUAACCAAUUAAAAGUAAAUGUAAGAAAACUCGGCG
.(((((....))))).((((...-....(((((((...---..)))))))........))-))..-------.......(((.(((..........................))).))). ( -24.03)
>DroEre_CAF1 7116 110 - 1
CACAGAGUAAUCGGAAUCGAUAA-AAUGGAUAGGUGGG---AAACCUAGCUAAGGUUUUUUAAAUUGAAAUUUAAUUGCUUAAAAAAGCAGCUUAAAAGUACAUUAAAAA--AUUC----
.........((((....))))..-..(((.(((((...---..))))).))).((((((((((....(..(((((((((((....)))))).)))))..)...)))))))--))).---- ( -18.90)
>DroYak_CAF1 8051 86 - 1
CACAGAGUAAUCGGAAUCGAUAAGAAUAGCUAGGUGGG---AAACCUAGCUAAUGUUCUC-AAAU-------UAAAUGUUUCAAAU------------G-----UAGAAG--AUAU----
....(((..((((....)))).....(((((((((...---..))))))))).....)))-....-------..............------------.-----......--....---- ( -18.70)
>consensus
CAUAGAGUAAUCGGAAUCGAUAA_AAACGCUAGGUGGG___AAACCUAGCUAAGGUUUUC_GAAU_______UAAAUGUGUCAAGUAACCAAUUAAAAGUAAAUGUAAAAAAACUCG_C_
..((((((.((((....)))).......(((((((........)))))))..............................................................)))))).. (-13.12 = -13.92 +   0.80)

alignment

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secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:06:37 2006