Locus 2093

Sequence ID 2L_DroMel_CAF1
Location 5,641,985 – 5,642,086
Length 101
Max. P 0.984117
window3381 window3382

overview

Window 1

Location 5,641,985 – 5,642,086
Length 101
Sequences 6
Columns 108
Reading direction forward
Mean pairwise identity 79.24
Mean single sequence MFE -27.08
Consensus MFE -15.37
Energy contribution -14.76
Covariance contribution -0.61
Combinations/Pair 1.22
Mean z-score -3.27
Structure conservation index 0.57
SVM decision value 1.94
SVM RNA-class probability 0.983419
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5641985 101 + 22407834
UUUCUUAGUCUAAUCUAAAACAAGGUAAAUAUCAGGUUGUUUCCUGUAUUCG---AUCGAAACAUCUGUAUAUACCUUUGUUCCGAUU-GGACAAAA--GUGCGUC-U
.......((((((((...(((((((((.(((.(((((.(((((.........---...))))))))))))).)))).)))))..))))-))))....--.......-. ( -27.30)
>DroVir_CAF1 125989 106 + 1
AACAACAAUCUAAUCUGAAACAAGGUACAUAUCAGAGUGUUUCUUAAAUUUGAUUAUUGAAACCUCUGUAUAUACCUUUCAUUGGAUU-AAACUGAUAAGCACAUG-U
..........(((((..(...((((((.(((.(((((.(((((.(((......)))..))))))))))))).))))))...)..))))-)................-. ( -24.80)
>DroEre_CAF1 88237 104 + 1
GUUCUUAGUCUAAUCUAAAACAAGGUACAUAUCAGGUUGUUUCCUGUAUUGGAUGAUCGAAACAUCUGUAUAUACCUUUGUUCCGAAU-GGACGAAA--GAGCAUC-U
((((((.(((((.((...(((((((((.(((.(((((.(((((...(((...)))...))))))))))))).)))).)))))..)).)-))))..))--))))...-. ( -30.20)
>DroWil_CAF1 126026 106 + 1
AUUCUAAUUCUAGUCUAAAACAAGGUACAUAUCAGGUUGUUUCGUAUAUUUGAAGCCUGAAACAUCUGUAUCUACCUUUGUUUCGAAUAGGACUAAA--GAGUUUUCU
.....(((((((((((.((((((((((.(((.(((((.((((((.............)))))))))))))).)))).))))))......)))))..)--))))).... ( -24.02)
>DroYak_CAF1 87666 104 + 1
GUUCUUGGUCUAAUCUAAAACAAGGUACAUAUCAGGUUGUUUCCUAUAUUGGAUGAUCGAAACAUCUGUAUAUACCUUUGUUCCGAAU-GGACGAAA--GAGCAUC-U
((((((.(((((.((...(((((((((.(((.(((((.(((((...............))))))))))))).)))).)))))..)).)-))))..))--))))...-. ( -30.06)
>DroAna_CAF1 83618 104 + 1
GUUCUUGAUUUAAUCUAAAACAAGGUACAUAUCUGGUUGUUUCCUAUAUUCAAAGUUUGAAACAUCUGUAUCUACCUUUGUUUCGAUU-AAACUAAA--GAGCUAC-U
((((((..(((((((..((((((((((.((((..((.((((((..((.......))..)))))).)))))).)))).)))))).))))-)))...))--))))...-. ( -26.10)
>consensus
GUUCUUAGUCUAAUCUAAAACAAGGUACAUAUCAGGUUGUUUCCUAUAUUCGAUGAUCGAAACAUCUGUAUAUACCUUUGUUCCGAAU_GGACUAAA__GAGCAUC_U
.....................((((((.(((.(((((.(((((...............))))))))))))).)))))).((((......))))............... (-15.37 = -14.76 +  -0.61)

alignment

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secondary structure

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dotplot

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Window 2

Location 5,641,985 – 5,642,086
Length 101
Sequences 6
Columns 108
Reading direction reverse
Mean pairwise identity 79.24
Mean single sequence MFE -26.68
Consensus MFE -14.97
Energy contribution -15.19
Covariance contribution 0.22
Combinations/Pair 1.14
Mean z-score -3.31
Structure conservation index 0.56
SVM decision value 1.96
SVM RNA-class probability 0.984117
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5641985 101 - 22407834
A-GACGCAC--UUUUGUCC-AAUCGGAACAAAGGUAUAUACAGAUGUUUCGAU---CGAAUACAGGAAACAACCUGAUAUUUACCUUGUUUUAGAUUAGACUAAGAAA
.-......(--((..(((.-(((((((((((.((((.((((((.((((((...---.........))))))..))).))).))))))))))).)))).))).)))... ( -25.00)
>DroVir_CAF1 125989 106 - 1
A-CAUGUGCUUAUCAGUUU-AAUCCAAUGAAAGGUAUAUACAGAGGUUUCAAUAAUCAAAUUUAAGAAACACUCUGAUAUGUACCUUGUUUCAGAUUAGAUUGUUGUU
.-...........((((((-((((......((((((((((((((((((((..(((......))).))))).))))).))))))))))......))))))))))..... ( -32.40)
>DroEre_CAF1 88237 104 - 1
A-GAUGCUC--UUUCGUCC-AUUCGGAACAAAGGUAUAUACAGAUGUUUCGAUCAUCCAAUACAGGAAACAACCUGAUAUGUACCUUGUUUUAGAUUAGACUAAGAAC
.-.....((--((..(((.-(((..((((((.(((((((((((.((((((...............))))))..))).))))))))))))))..)))..))).)))).. ( -27.56)
>DroWil_CAF1 126026 106 - 1
AGAAAACUC--UUUAGUCCUAUUCGAAACAAAGGUAGAUACAGAUGUUUCAGGCUUCAAAUAUACGAAACAACCUGAUAUGUACCUUGUUUUAGACUAGAAUUAGAAU
.........--((((((.(((.(((((((((.((((.((((((.((((((...............))))))..))).))).))))))))))).)).))).)))))).. ( -25.06)
>DroYak_CAF1 87666 104 - 1
A-GAUGCUC--UUUCGUCC-AUUCGGAACAAAGGUAUAUACAGAUGUUUCGAUCAUCCAAUAUAGGAAACAACCUGAUAUGUACCUUGUUUUAGAUUAGACCAAGAAC
.-.....((--((..(((.-(((..((((((.(((((((((((.((((((...............))))))..))).))))))))))))))..)))..))).)))).. ( -27.36)
>DroAna_CAF1 83618 104 - 1
A-GUAGCUC--UUUAGUUU-AAUCGAAACAAAGGUAGAUACAGAUGUUUCAAACUUUGAAUAUAGGAAACAACCAGAUAUGUACCUUGUUUUAGAUUAAAUCAAGAAC
.-.....((--((..((((-(((((((((((.((((.(((((((.((.....))))))......(....).......))).))))))))))).)))))))).)))).. ( -22.70)
>consensus
A_GAUGCUC__UUUAGUCC_AAUCGAAACAAAGGUAUAUACAGAUGUUUCAAUCAUCAAAUAUAGGAAACAACCUGAUAUGUACCUUGUUUUAGAUUAGACUAAGAAC
...............(((....(((((((((.((((.((((((.((((((...............))))))..))).))).))))))))))).))...)))....... (-14.97 = -15.19 +   0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:19:25 2006