Locus 3893

Sequence ID 2R_DroMel_CAF1
Location 12,864,151 – 12,864,289
Length 138
Max. P 0.531691
window6286 window6287

overview

Window 6

Location 12,864,151 – 12,864,262
Length 111
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 83.42
Mean single sequence MFE -26.25
Consensus MFE -15.08
Energy contribution -14.64
Covariance contribution -0.44
Combinations/Pair 1.20
Mean z-score -2.01
Structure conservation index 0.57
SVM decision value -0.00
SVM RNA-class probability 0.531691
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 12864151 111 + 20766785
GUUUCGCACAGAAGGAUGGAUAAAAAUAUUUGCUUGUCGUCAAUAAAUAUUUUGUGCUGUAUUUA----UUGAU--CAAAAUUGCGAGG-CAACAAUGCA--AAGCAUUUUGUUGGCUCA
.....(((......((..(.((((....)))).)..))((((((((((((........)))))))----)))))--......)))(((.-(((((((((.--..))))..))))).))). ( -28.40)
>DroSim_CAF1 219438 111 + 1
GUUUCGCACAGAAGGAUGGAUAAAAAUAUUUGCUUGUCGUCAAUAAAUAUUUUGUGCUGUAUUUA----UUGAU--CAAAAUUGCGAGG-CAACAAUGCA--AAGCAUUUUGUUGGCUCA
.....(((......((..(.((((....)))).)..))((((((((((((........)))))))----)))))--......)))(((.-(((((((((.--..))))..))))).))). ( -28.40)
>DroEre_CAF1 211581 111 + 1
GUUUCGCACAGAAGGAUGGAUAAAAAUAUUUGCUUGUCGUCAAUAAAUAUUCUGUGCUGUAUUUA----UUGAU--CAAAAUUGCGAGA-CAACAAUGCG--AAGCAUUUCGUUGGCUAA
((((((((......((..(.((((....)))).)..))((((((((((((........)))))))----)))))--......)))))))-)..(((((.(--(....)).)))))..... ( -26.50)
>DroWil_CAF1 318067 112 + 1
UUUUUGAGUUUAAGCA--GCCAAAAAUAUUUGCUUAUUGUCAAUAAAUAUUUUGC-AUGCAUUUUGCAUUUGAUAGCAAAAUUGCAAAACCAACAUUACCAAAAGUAUUU-AUU----AG
.....((...((((((--(..........)))))))...))((((((((((((..-.((((((((((........)))))).))))...............)))))))))-)))----.. ( -19.87)
>DroYak_CAF1 217557 111 + 1
GUUUCGCACAGAAGGAUGGAUAAAAAUAUUUGCUUGUCGUCAAUAAAUAUUUUGUGCUGUAUUUA----UUGAU--CAAAAUUGCGAGA-CAACAAUGCG--AAGCAUUUUGUUGGUUCA
((((((((......((..(.((((....)))).)..))((((((((((((........)))))))----)))))--......)))))))-)........(--((.((......)).))). ( -28.10)
>consensus
GUUUCGCACAGAAGGAUGGAUAAAAAUAUUUGCUUGUCGUCAAUAAAUAUUUUGUGCUGUAUUUA____UUGAU__CAAAAUUGCGAGA_CAACAAUGCA__AAGCAUUUUGUUGGCUCA
.((((((((((...........((((((((((.(((....)))))))))))))...)))).........(((....)))....)))))).(((((((((.....)))))..))))..... (-15.08 = -14.64 +  -0.44)

alignment

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secondary structure

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dotplot

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Window 7

Location 12,864,191 – 12,864,289
Length 98
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 77.15
Mean single sequence MFE -21.10
Consensus MFE -10.12
Energy contribution -10.60
Covariance contribution 0.48
Combinations/Pair 1.17
Mean z-score -1.79
Structure conservation index 0.48
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 12864191 98 - 20766785
-------------CCCAACGUUCGAUGGAUAAAUAUUUGGUGAGCCAACAAAAUGCUU--UGCAUUGUUG-CCUCGCAAUUUUG--AUCAA----UAAAUACAGCACAAAAUAUUUAUUG
-------------.(((.(....).)))((((((((((.(((((.(((((..((((..--.)))))))))-.))))).((((..--.....----.))))........)))))))))).. ( -20.20)
>DroSim_CAF1 219478 98 - 1
-------------CCCAACGUUCGAUGGAUAAAUAUUUGGUGAGCCAACAAAAUGCUU--UGCAUUGUUG-CCUCGCAAUUUUG--AUCAA----UAAAUACAGCACAAAAUAUUUAUUG
-------------.(((.(....).)))((((((((((.(((((.(((((..((((..--.)))))))))-.))))).((((..--.....----.))))........)))))))))).. ( -20.20)
>DroEre_CAF1 211621 98 - 1
-------------CCCAUCAUUCGAUGGGUAAAUAUUUGGUUAGCCAACGAAAUGCUU--CGCAUUGUUG-UCUCGCAAUUUUG--AUCAA----UAAAUACAGCACAGAAUAUUUAUUG
-------------((((((....))))))(((((((((((....))..((((((((..--.(((....))-)...)).))))))--.....----.............)))))))))... ( -21.60)
>DroWil_CAF1 318105 112 - 1
AAUGUUUCUCAUUUUGAAAAUUGGCUG--AAAAUAUUUGACU----AAU-AAAUACUUUUGGUAAUGUUGGUUUUGCAAUUUUGCUAUCAAAUGCAAAAUGCAU-GCAAAAUAUUUAUUG
....((((.......))))....((..--(((.((((((...----..)-))))).)))..))((((...(((((((((((((((........)))))))...)-)))))))...)))). ( -21.90)
>DroYak_CAF1 217597 97 - 1
-------------C-CAUCAUUCGAUGGAUAAAUAUUUGGUGAACCAACAAAAUGCUU--CGCAUUGUUG-UCUCGCAAUUUUG--AUCAA----UAAAUACAGCACAAAAUAUUUAUUG
-------------(-((((....)))))((((((((((.((((..(((((..((((..--.)))))))))-..)))).((((..--.....----.))))........)))))))))).. ( -21.60)
>consensus
_____________CCCAACAUUCGAUGGAUAAAUAUUUGGUGAGCCAACAAAAUGCUU__CGCAUUGUUG_UCUCGCAAUUUUG__AUCAA____UAAAUACAGCACAAAAUAUUUAUUG
...........................(((((((((((.(((.........(((((.....)))))((((......))))........................))).))))))))))). (-10.12 = -10.60 +   0.48)

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 11:06:38 2006