Locus 1451

Sequence ID 3L_DroMel_CAF1
Location 4,197,139 – 4,197,246
Length 107
Max. P 0.999671
window2262 window2263

overview

Window 2

Location 4,197,139 – 4,197,246
Length 107
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 70.19
Mean single sequence MFE -31.40
Consensus MFE -13.46
Energy contribution -16.40
Covariance contribution 2.94
Combinations/Pair 1.23
Mean z-score -3.23
Structure conservation index 0.43
SVM decision value 2.59
SVM RNA-class probability 0.995583
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4197139 107 + 23771897
CUGCU---GUUAAGUUAUGCCG----AUUAUCACUCACACGCCAUGUUGUC------CAAACGCAAGCAAAUUUCGCUUGGUUUGCGUGACGUGCGAGUAAUCUUCAUAGUAACAUACAU
....(---((((...((((..(----(((...((((.((((.((((.....------(((((.(((((.......)))))))))))))).)))).))))))))..)))).)))))..... ( -31.20)
>DroSec_CAF1 46976 107 + 1
CUCCU---GUUUAGUUAUGCCA----AUUAUUACUCACACGCCAUGUUGUC------CAAACGCAAGCAAAUUUCGUUUGGUUUACGUGACGUGCGGGUAAUCUUCAUGGUAACAUUCAU
.....---.........(((((----...(((((((.((((.(((((...(------((((((.((.....)).)))))))...))))).)))).))))))).....)))))........ ( -33.50)
>DroSim_CAF1 47193 107 + 1
CUCCU---GUUUAGUUAUGCCA----AUUAUUACUCACACGCCAUGUUGUC------CAAACGCAAGCAAAUUUCGUUUGGUUUACGUGACGUGCGUGUAAUCUUCAUGGUAACAUUCAU
.....---.........(((((----...(((((.(.((((.(((((...(------((((((.((.....)).)))))))...))))).)))).).))))).....)))))........ ( -30.20)
>DroAna_CAF1 46013 108 + 1
CUUUUAUAUUUUCAUCAAGCCAUUAGAAUAUCACGCAUACGCCGUGUGUUCUUGGCUUGAAGGCAUGAAAAC------UAGCCAACGUGUCGUAUGAGUGUUUUUU--UGAAGCAA----
..(((((((.....((((((((..((((((.(((((....).)))))))))))))))))).((((((.....------.......)))))))))))))((((((..--.)))))).---- ( -30.70)
>consensus
CUCCU___GUUUAGUUAUGCCA____AUUAUCACUCACACGCCAUGUUGUC______CAAACGCAAGCAAAUUUCGUUUGGUUUACGUGACGUGCGAGUAAUCUUCAUGGUAACAUUCAU
.................(((((.......(((((((.((((.(((((...........((((.(((((.......)))))))))))))).)))).))))))).....)))))........ (-13.46 = -16.40 +   2.94)

alignment

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secondary structure

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dotplot

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Window 3

Location 4,197,139 – 4,197,246
Length 107
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 70.19
Mean single sequence MFE -31.20
Consensus MFE -16.72
Energy contribution -17.29
Covariance contribution 0.56
Combinations/Pair 1.30
Mean z-score -2.96
Structure conservation index 0.54
SVM decision value 3.87
SVM RNA-class probability 0.999671
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4197139 107 - 23771897
AUGUAUGUUACUAUGAAGAUUACUCGCACGUCACGCAAACCAAGCGAAAUUUGCUUGCGUUUG------GACAACAUGGCGUGUGAGUGAUAAU----CGGCAUAACUUAAC---AGCAG
.(((..((((...(((..(((((((((((((((.(((((((((((((...))))))).)))))------.....).)))))))))))))))..)----))...))))...))---).... ( -39.10)
>DroSec_CAF1 46976 107 - 1
AUGAAUGUUACCAUGAAGAUUACCCGCACGUCACGUAAACCAAACGAAAUUUGCUUGCGUUUG------GACAACAUGGCGUGUGAGUAAUAAU----UGGCAUAACUAAAC---AGGAG
......(((((((.....(((((.(((((((((.((...(((((((...........))))))------)...)).))))))))).)))))...----)))..)))).....---..... ( -31.60)
>DroSim_CAF1 47193 107 - 1
AUGAAUGUUACCAUGAAGAUUACACGCACGUCACGUAAACCAAACGAAAUUUGCUUGCGUUUG------GACAACAUGGCGUGUGAGUAAUAAU----UGGCAUAACUAAAC---AGGAG
......(((((((.....(((((.(((((((((.((...(((((((...........))))))------)...)).))))))))).)))))...----)))..)))).....---..... ( -31.50)
>DroAna_CAF1 46013 108 - 1
----UUGCUUCA--AAAAAACACUCAUACGACACGUUGGCUA------GUUUUCAUGCCUUCAAGCCAAGAACACACGGCGUAUGCGUGAUAUUCUAAUGGCUUGAUGAAAAUAUAAAAG
----....((((--.......................(((..------........))).((((((((((((..((((.......))))...))))..)))))))))))).......... ( -22.60)
>consensus
AUGAAUGUUACCAUGAAGAUUACUCGCACGUCACGUAAACCAAACGAAAUUUGCUUGCGUUUG______GACAACAUGGCGUGUGAGUAAUAAU____UGGCAUAACUAAAC___AGGAG
....((((((........(((((.((((((((..(((((..........)))))....(((........))).....)))))))).))))).......))))))................ (-16.72 = -17.29 +   0.56)

alignment

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secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:08:05 2006