Locus 6496

Sequence ID 2L_DroMel_CAF1
Location 18,256,684 – 18,256,780
Length 96
Max. P 0.865653
window10370 window10371

overview

Window 0

Location 18,256,684 – 18,256,780
Length 96
Sequences 6
Columns 100
Reading direction forward
Mean pairwise identity 80.88
Mean single sequence MFE -25.07
Consensus MFE -15.36
Energy contribution -16.28
Covariance contribution 0.92
Combinations/Pair 1.18
Mean z-score -2.18
Structure conservation index 0.61
SVM decision value 0.61
SVM RNA-class probability 0.799060
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18256684 96 + 22407834
AUUACGCAUACGCCUCGUUAGCCAGGACCGAGUAAUAAGGCCAAAGGCCAAA-CGAGUGCCAGAAA-CGGCAGAGAGCGUGCAAACAUAUU--CAAAACA
..(((((......((((((.(((.((.((.........))))...)))..))-))))((((.....-.))))....)))))..........--....... ( -25.90)
>DroVir_CAF1 160024 91 + 1
AUUACGCAUACGCAGCGUAUGCA-GCAGAAAAUUGUUUGGCUGCGGGCCAAACCAAAUGCCA--AA-UGGCGAAA--CGUG-AAACAUAUU--UUCAAUA
.....(((((((...))))))).-...(((((((((((.((...((......))...((((.--..-.))))...--.)).-))))).)))--))).... ( -27.10)
>DroPse_CAF1 115952 91 + 1
AUUACGCAUACGCCCGGUUAGCCAG---CGAGUAAUUUGGCUAAAGGCCAAA--AAGUGCCCAAAACCGGCA---AACGUA-AAACAUAUUUUGAAAACA
.(((((.....(((...((((((((---........)))))))).)))....--...((((.......))))---..))))-)................. ( -21.80)
>DroSim_CAF1 105820 96 + 1
AUUACGCAUACGCCUCGUUAGCCAGGACCGAGUAAUAUGGCCAAAGGCCAAA-CGAGUGCCAGAAA-CGGCAGAGAGCGUGCAAACAUAUU--CAAAACA
..(((((......((((((.(((.((.((((....).)))))...)))..))-))))((((.....-.))))....)))))..........--....... ( -26.00)
>DroEre_CAF1 101265 96 + 1
AUUACGCAUACGCCUCGUUAGCCAGGACGGAAUAAUAUGGCCAAAGGCCAAC-CGAGUGCCAGAAA-CGGCGGAGAGCGUGCAAACAUAUU--CAAAACA
..(((((...(((((((((......))))).......(((((...)))))..-.............-.))))....)))))..........--....... ( -23.60)
>DroYak_CAF1 105163 96 + 1
AUUACGCAUACGCCUCGUUAGCCAGGACCGAGUAAUAUGGCCAAAGGCCAAA-CGAGUGCCAGAAA-CGGCAGAGAGCGUGCAAACAUAUU--CAAAACA
..(((((......((((((.(((.((.((((....).)))))...)))..))-))))((((.....-.))))....)))))..........--....... ( -26.00)
>consensus
AUUACGCAUACGCCUCGUUAGCCAGGACCGAGUAAUAUGGCCAAAGGCCAAA_CGAGUGCCAGAAA_CGGCAGAGAGCGUGCAAACAUAUU__CAAAACA
........((((((((.....................(((((...))))).......((((.......))))))).)))))................... (-15.36 = -16.28 +   0.92)

alignment

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secondary structure

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dotplot

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Window 1

Location 18,256,684 – 18,256,780
Length 96
Sequences 6
Columns 100
Reading direction reverse
Mean pairwise identity 80.88
Mean single sequence MFE -29.57
Consensus MFE -18.29
Energy contribution -20.52
Covariance contribution 2.23
Combinations/Pair 1.15
Mean z-score -2.41
Structure conservation index 0.62
SVM decision value 0.85
SVM RNA-class probability 0.865653
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18256684 96 - 22407834
UGUUUUG--AAUAUGUUUGCACGCUCUCUGCCG-UUUCUGGCACUCG-UUUGGCCUUUGGCCUUAUUACUCGGUCCUGGCUAACGAGGCGUAUGCGUAAU
.......--..(((((....((((....(((((-....)))))((((-((.((((...((((.........))))..))))))))))))))..))))).. ( -31.60)
>DroVir_CAF1 160024 91 - 1
UAUUGAA--AAUAUGUUU-CACG--UUUCGCCA-UU--UGGCAUUUGGUUUGGCCCGCAGCCAAACAAUUUUCUGC-UGCAUACGCUGCGUAUGCGUAAU
....(((--(((......-....--....(((.-..--.))).....(((((((.....))))))).))))))(((-.(((((((...)))))))))).. ( -27.40)
>DroPse_CAF1 115952 91 - 1
UGUUUUCAAAAUAUGUUU-UACGUU---UGCCGGUUUUGGGCACUU--UUUGGCCUUUAGCCAAAUUACUCG---CUGGCUAACCGGGCGUAUGCGUAAU
...........(((((..-(((((.---..((((((.(.(((....--((((((.....))))))......)---)).)..))))))))))).))))).. ( -26.90)
>DroSim_CAF1 105820 96 - 1
UGUUUUG--AAUAUGUUUGCACGCUCUCUGCCG-UUUCUGGCACUCG-UUUGGCCUUUGGCCAUAUUACUCGGUCCUGGCUAACGAGGCGUAUGCGUAAU
.......--..(((((....((((....(((((-....)))))((((-((.((((...((((.........))))..))))))))))))))..))))).. ( -31.70)
>DroEre_CAF1 101265 96 - 1
UGUUUUG--AAUAUGUUUGCACGCUCUCCGCCG-UUUCUGGCACUCG-GUUGGCCUUUGGCCAUAUUAUUCCGUCCUGGCUAACGAGGCGUAUGCGUAAU
.......--..(((((....((((.(((.((((-....)))).....-(((((((...(((...........)))..))))))))))))))..))))).. ( -28.10)
>DroYak_CAF1 105163 96 - 1
UGUUUUG--AAUAUGUUUGCACGCUCUCUGCCG-UUUCUGGCACUCG-UUUGGCCUUUGGCCAUAUUACUCGGUCCUGGCUAACGAGGCGUAUGCGUAAU
.......--..(((((....((((....(((((-....)))))((((-((.((((...((((.........))))..))))))))))))))..))))).. ( -31.70)
>consensus
UGUUUUG__AAUAUGUUUGCACGCUCUCUGCCG_UUUCUGGCACUCG_UUUGGCCUUUGGCCAUAUUACUCGGUCCUGGCUAACGAGGCGUAUGCGUAAU
...........(((((....((((.....((((.....)))).((((..((((((...((((.........))))..))))))))))))))..))))).. (-18.29 = -20.52 +   2.23)

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 12:12:38 2006