Locus 1415

Sequence ID 3L_DroMel_CAF1
Location 4,116,831 – 4,116,934
Length 103
Max. P 0.715270
window2198 window2199

overview

Window 8

Location 4,116,831 – 4,116,934
Length 103
Sequences 5
Columns 119
Reading direction forward
Mean pairwise identity 82.05
Mean single sequence MFE -26.11
Consensus MFE -14.86
Energy contribution -16.82
Covariance contribution 1.96
Combinations/Pair 1.05
Mean z-score -2.02
Structure conservation index 0.57
SVM decision value 0.20
SVM RNA-class probability 0.630070
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4116831 103 + 23771897
UUUAGAAACUACAGUG-AUUUAAAGCGUGUCACUGGGUGAGAAUAGAUAAGAAGAUUUUCUUAUUAGAAAAACAGCUAUGAAAGACUUGCA-AUAGACCAGUGAC--------------
((((((.((....)).-.))))))....(((((((((..((....((((((((....)))))))).......((....)).....))..).-.....))))))))-------------- ( -20.00)
>DroSec_CAF1 18358 114 + 1
UUAAGAAACUACAGUG-AUUUAAAGCGUGUCACUGGUUGAGAAUAGAUAA---GAUUUUCAUAUUAAAAAAACAGCAAUGAAAGACUUGCA-AUAGACCAGUGACAGUGGUAUUCCGGG
....((((((((.((.-.......)).(((((((((((((((((......---.))))))..............((((........)))).-...)))))))))))))))).))).... ( -29.90)
>DroSim_CAF1 18754 117 + 1
UUAAGAAACUACAGUG-AUUUAAAGCGUGUCACUGGUUGAGAAUAGAUAAGAAGAUUUUCAUAUUAGAAAAACAGCAAUGAAAGACUUGCA-AUAGACCAGUGACAGUGGUAUUCCGGG
....((((((((.((.-.......)).(((((((((((((((((..........))))))..............((((........)))).-...)))))))))))))))).))).... ( -29.30)
>DroEre_CAF1 18602 117 + 1
UUAAGUAACUACUGGGGAUACAAA-UGUGUCAAUGGUUGAGAAUAGAUAAGAAGAUUUUCCUAUUAGAAAAACCGUACUGAAAAACUAGCA-AUAUACCAGUGUCAGUGGUAUUCUGGG
.......((((((((.(((((...-.))))).((((((...(((((..(((....)))..))))).....))))))((((...........-......)))).))))))))........ ( -22.63)
>DroYak_CAF1 18825 117 + 1
UUAAA-AACUACUGGAGACAUAAAGUGUGUCACUGGUUGAU-AUAGAUAAGAUGAUUUUCCUAUUAGAAAAGCGGUACUGAAAAACUUGCAAAUAGACCAGUGACAGUGGUAUUCCGGG
.....-.(((((((....)).......(((((((((((...-.............(((((......)))))(((((........)).))).....))))))))))))))))........ ( -28.70)
>consensus
UUAAGAAACUACAGUG_AUUUAAAGCGUGUCACUGGUUGAGAAUAGAUAAGAAGAUUUUCAUAUUAGAAAAACAGCAAUGAAAGACUUGCA_AUAGACCAGUGACAGUGGUAUUCCGGG
...........................(((((((((((((((((..........))))))..............((((........)))).....)))))))))))............. (-14.86 = -16.82 +   1.96)

alignment

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secondary structure

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dotplot

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Window 9

Location 4,116,831 – 4,116,934
Length 103
Sequences 5
Columns 119
Reading direction reverse
Mean pairwise identity 82.05
Mean single sequence MFE -20.09
Consensus MFE -14.12
Energy contribution -14.12
Covariance contribution 0.00
Combinations/Pair 1.21
Mean z-score -1.78
Structure conservation index 0.70
SVM decision value 0.39
SVM RNA-class probability 0.715270
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4116831 103 - 23771897
--------------GUCACUGGUCUAU-UGCAAGUCUUUCAUAGCUGUUUUUCUAAUAAGAAAAUCUUCUUAUCUAUUCUCACCCAGUGACACGCUUUAAAU-CACUGUAGUUUCUAAA
--------------((((((((.....-.(((.((........))))).......(((((((....)))))))..........))))))))...........-................ ( -17.70)
>DroSec_CAF1 18358 114 - 1
CCCGGAAUACCACUGUCACUGGUCUAU-UGCAAGUCUUUCAUUGCUGUUUUUUUAAUAUGAAAAUC---UUAUCUAUUCUCAACCAGUGACACGCUUUAAAU-CACUGUAGUUUCUUAA
...(((((.....((((((((((....-.((((........)))).((((((.......)))))).---.............)))))))))).((.......-....)).))))).... ( -20.20)
>DroSim_CAF1 18754 117 - 1
CCCGGAAUACCACUGUCACUGGUCUAU-UGCAAGUCUUUCAUUGCUGUUUUUCUAAUAUGAAAAUCUUCUUAUCUAUUCUCAACCAGUGACACGCUUUAAAU-CACUGUAGUUUCUUAA
...(((((.....((((((((((....-.((((........))))...(((((......)))))..................)))))))))).((.......-....)).))))).... ( -22.10)
>DroEre_CAF1 18602 117 - 1
CCCAGAAUACCACUGACACUGGUAUAU-UGCUAGUUUUUCAGUACGGUUUUUCUAAUAGGAAAAUCUUCUUAUCUAUUCUCAACCAUUGACACA-UUUGUAUCCCCAGUAGUUACUUAA
...((((((..(((((.((((((....-.))))))...)))))..((((((((.....))))))))........)))))).(((.((((.....-..........)))).)))...... ( -20.36)
>DroYak_CAF1 18825 117 - 1
CCCGGAAUACCACUGUCACUGGUCUAUUUGCAAGUUUUUCAGUACCGCUUUUCUAAUAGGAAAAUCAUCUUAUCUAU-AUCAACCAGUGACACACUUUAUGUCUCCAGUAGUU-UUUAA
...(((.......((((((((((......((..((........)).))((((((....)))))).............-....)))))))))).((.....)).))).......-..... ( -20.10)
>consensus
CCCGGAAUACCACUGUCACUGGUCUAU_UGCAAGUCUUUCAUUGCUGUUUUUCUAAUAGGAAAAUCUUCUUAUCUAUUCUCAACCAGUGACACGCUUUAAAU_CACUGUAGUUUCUUAA
..............(((((((((......(((.((........)))))(((((......)))))..................)))))))))............................ (-14.12 = -14.12 +   0.00)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:06:55 2006