Locus 7602

Sequence ID 2L_DroMel_CAF1
Location 21,022,221 – 21,022,351
Length 130
Max. P 0.998433
window12219 window12220 window12221

overview

Window 9

Location 21,022,221 – 21,022,337
Length 116
Sequences 3
Columns 117
Reading direction forward
Mean pairwise identity 81.47
Mean single sequence MFE -30.80
Consensus MFE -28.21
Energy contribution -28.10
Covariance contribution -0.11
Combinations/Pair 1.07
Mean z-score -1.00
Structure conservation index 0.92
SVM decision value 0.70
SVM RNA-class probability 0.827029
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 21022221 116 + 22407834
UAUACAUGUAUGUAAGUAUAUAUCUGGAGGAGGAUUCGUGUGAAAUUUCGUAUGCGGCCUUUGUGUUUGAGUGUUGCGCACACUUGAGUGCACAAUGGGGAAACCUUUUCGCACGC-
....((.((((((....)))))).))..........(((((((((....((..((((((((.......))).)))))((((......))))))...(((....)))))))))))).- ( -32.50)
>DroYak_CAF1 78407 106 + 1
----------UUUAAGUAUAUAUCUGGAGGAGGAUUCGUGUGAAAUUUUGUAUGCGGCCUUUGUGUUUGAGUGCCGCGCACACUUGAGUGCACAAUGGGAAAACCUUUUCGCACGC-
----------...........((((......)))).(((((((((..((((..((((((((.......))).)))))((((......)))))))).((.....)).))))))))).- ( -32.30)
>DroAna_CAF1 99113 95 + 1
----------------------CCUGGAGGAGAAUUCGUGUGAAAUUUUGUAUGCGGCCUUUGUGUUUGAGUGUUGCGCACACUUGAGUGCACAAUGGGGAAGCCUUUUCGCACACA
----------------------((....)).......((((((((..((((..((((((((.......))).)))))((((......)))))))).(((....)))))))))))... ( -27.60)
>consensus
__________U_UAAGUAUAUAUCUGGAGGAGGAUUCGUGUGAAAUUUUGUAUGCGGCCUUUGUGUUUGAGUGUUGCGCACACUUGAGUGCACAAUGGGGAAACCUUUUCGCACGC_
.........................(((......)))((((((((..((((..((((((((.......))).)))))((((......)))))))).(((....)))))))))))... (-28.21 = -28.10 +  -0.11)

alignment

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secondary structure

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Window 0

Location 21,022,221 – 21,022,337
Length 116
Sequences 3
Columns 117
Reading direction reverse
Mean pairwise identity 81.47
Mean single sequence MFE -24.10
Consensus MFE -20.29
Energy contribution -19.63
Covariance contribution -0.66
Combinations/Pair 1.17
Mean z-score -1.72
Structure conservation index 0.84
SVM decision value 0.84
SVM RNA-class probability 0.863892
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 21022221 116 - 22407834
-GCGUGCGAAAAGGUUUCCCCAUUGUGCACUCAAGUGUGCGCAACACUCAAACACAAAGGCCGCAUACGAAAUUUCACACGAAUCCUCCUCCAGAUAUAUACUUACAUACAUGUAUA
-.((((.((((..((((.....((((((((......)))))))).....))))........((....))...)))).))))................(((((..........))))) ( -22.10)
>DroYak_CAF1 78407 106 - 1
-GCGUGCGAAAAGGUUUUCCCAUUGUGCACUCAAGUGUGCGCGGCACUCAAACACAAAGGCCGCAUACAAAAUUUCACACGAAUCCUCCUCCAGAUAUAUACUUAAA----------
-.((((.((((.((.....)).((((((((......))))(((((.((.........)))))))..))))..)))).))))..........................---------- ( -26.70)
>DroAna_CAF1 99113 95 - 1
UGUGUGCGAAAAGGCUUCCCCAUUGUGCACUCAAGUGUGCGCAACACUCAAACACAAAGGCCGCAUACAAAAUUUCACACGAAUUCUCCUCCAGG----------------------
((((((((....((.....)).((((((((......)))))))).................))))))))..........................---------------------- ( -23.50)
>consensus
_GCGUGCGAAAAGGUUUCCCCAUUGUGCACUCAAGUGUGCGCAACACUCAAACACAAAGGCCGCAUACAAAAUUUCACACGAAUCCUCCUCCAGAUAUAUACUUA_A__________
..((((.((((.((.....)).((((((((......))))))))............................)))).)))).................................... (-20.29 = -19.63 +  -0.66)

alignment

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secondary structure

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Window 1

Location 21,022,261 – 21,022,351
Length 90
Sequences 3
Columns 117
Reading direction reverse
Mean pairwise identity 77.78
Mean single sequence MFE -32.43
Consensus MFE -23.26
Energy contribution -22.60
Covariance contribution -0.66
Combinations/Pair 1.14
Mean z-score -2.70
Structure conservation index 0.72
SVM decision value 3.10
SVM RNA-class probability 0.998433
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 21022261 90 - 22407834
-----------------------UGAGAAUGUGUGUG----GCGUGCGAAAAGGUUUCCCCAUUGUGCACUCAAGUGUGCGCAACACUCAAACACAAAGGCCGCAUACGAAAUUUCA
-----------------------.((((.((((((((----((.((.(....((.....)).((((((((......))))))))........).))...))))))))))...)))). ( -29.90)
>DroYak_CAF1 78437 90 - 1
-----------------------UGAGAAUGUGUGUG----GCGUGCGAAAAGGUUUUCCCAUUGUGCACUCAAGUGUGCGCGGCACUCAAACACAAAGGCCGCAUACAAAAUUUCA
-----------------------.((((.((((((((----((((((.....((.....))..(((((((......))))))))))).....(.....)))))))))))...)))). ( -33.10)
>DroAna_CAF1 99131 117 - 1
AUCUGCUGGUUGCUAGUAUGUCCUGUAUAUGUGUGUGUCCUGUGUGCGAAAAGGCUUCCCCAUUGUGCACUCAAGUGUGCGCAACACUCAAACACAAAGGCCGCAUACAAAAUUUCA
...((((((...))))))...........((((((((.(((.((((......((.....)).((((((((......))))))))........)))).))).))))))))........ ( -34.30)
>consensus
_______________________UGAGAAUGUGUGUG____GCGUGCGAAAAGGUUUCCCCAUUGUGCACUCAAGUGUGCGCAACACUCAAACACAAAGGCCGCAUACAAAAUUUCA
.............................((((((((......(((......((.....)).((((((((......))))))))........)))......))))))))........ (-23.26 = -22.60 +  -0.66)

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 12:40:51 2006