Locus 822

Sequence ID X_DroMel_CAF1
Location 2,303,800 – 2,303,943
Length 143
Max. P 0.983906
window1330 window1331 window1332

overview

Window 0

Location 2,303,800 – 2,303,911
Length 111
Sequences 5
Columns 113
Reading direction forward
Mean pairwise identity 85.93
Mean single sequence MFE -25.25
Consensus MFE -19.98
Energy contribution -19.14
Covariance contribution -0.84
Combinations/Pair 1.27
Mean z-score -1.74
Structure conservation index 0.79
SVM decision value 0.49
SVM RNA-class probability 0.755649
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2303800 111 + 22224390
GUUAUUAUUUACAAUUCUGAACAUUUGAAUAUCUGGCGUUGCCAGACCA--GAUCAUCGAUGUACAUUUUCAUAUAAAAUCGAUGAUAAGGAAUAAGAUCGGAUAAUUGCUAU
...........(((((((((.(.........((((((...))))))((.--.(((((((((.................)))))))))..)).....).)))))..)))).... ( -26.83)
>DroSec_CAF1 1787 110 + 1
GUUUCUGUUUACAAUUCUGAACAUUUGAAUAUCUGGCGUUGCCAGACCA--GACCACCGAUGUACAUUUUCAUAUAA-AUCGAUGGUAAGGAAUAAGAUCGGAUAAUUGCUAU
...........(((((((((.(.........((((((...))))))((.--.((((.((((................-)))).))))..)).....).)))))..)))).... ( -24.29)
>DroSim_CAF1 2590 110 + 1
GUUUCUGUUUACAAUUCUGAACAUUUGAAUAUCUGGCGUUGCCAGACCA--GACCACCGAUGUAGAUUUUCAUAUAA-AUCGAUGGUAAGGAAUAAGAUCGGAUAAUUGCUAU
...........(((((((((.(.........((((((...))))))((.--.((((.(((((((........)))..-)))).))))..)).....).)))))..)))).... ( -24.30)
>DroEre_CAF1 2932 113 + 1
GUUUCUAUUUACAAUUCUUAACAUUUGAAUCUCUGGCGUUGCCAGAUCAACUACCAUCGAUGUACAUUUUUAUACGAAAUCGAUGGUAAGGAAAAAAAUCGGAUAAUUUCCUU
.(((((..................((((...((((((...)))))))))).((((((((((.................)))))))))).)))))......(((.....))).. ( -27.43)
>DroYak_CAF1 2638 113 + 1
GUUUCUAUUUGUAAUUCUUAGCAUUUGAAUCUCUGGCGUUGCCAGAUCAACGAUUAUCGAUGUACAUUUUAAUACGAAAUCGAUGGUAAGGAGUAAAAUUUGAUCACUUCAUU
...((.((((....((((((.(((((((...((((((...))))))))))(((((.(((.(((........)))))))))))))).))))))...))))..)).......... ( -23.40)
>consensus
GUUUCUAUUUACAAUUCUGAACAUUUGAAUAUCUGGCGUUGCCAGACCA__GACCAUCGAUGUACAUUUUCAUAUAAAAUCGAUGGUAAGGAAUAAGAUCGGAUAAUUGCUAU
......................((((((...((((((...))))))((....((((((((((((........))))...))))))))..)).......))))))......... (-19.98 = -19.14 +  -0.84)

alignment

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secondary structure

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dotplot

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Window 1

Location 2,303,800 – 2,303,911
Length 111
Sequences 5
Columns 113
Reading direction reverse
Mean pairwise identity 85.93
Mean single sequence MFE -27.60
Consensus MFE -19.78
Energy contribution -20.18
Covariance contribution 0.40
Combinations/Pair 1.24
Mean z-score -3.11
Structure conservation index 0.72
SVM decision value 1.96
SVM RNA-class probability 0.983906
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2303800 111 - 22224390
AUAGCAAUUAUCCGAUCUUAUUCCUUAUCAUCGAUUUUAUAUGAAAAUGUACAUCGAUGAUC--UGGUCUGGCAACGCCAGAUAUUCAAAUGUUCAGAAUUGUAAAUAAUAAC
...((((((.............((..(((((((((..(((((....))))).))))))))).--.))((((((...))))))...............)))))).......... ( -28.40)
>DroSec_CAF1 1787 110 - 1
AUAGCAAUUAUCCGAUCUUAUUCCUUACCAUCGAU-UUAUAUGAAAAUGUACAUCGGUGGUC--UGGUCUGGCAACGCCAGAUAUUCAAAUGUUCAGAAUUGUAAACAGAAAC
...((((((.............((..(((((((((-.(((((....))))).))))))))).--.))((((((...))))))...............)))))).......... ( -31.80)
>DroSim_CAF1 2590 110 - 1
AUAGCAAUUAUCCGAUCUUAUUCCUUACCAUCGAU-UUAUAUGAAAAUCUACAUCGGUGGUC--UGGUCUGGCAACGCCAGAUAUUCAAAUGUUCAGAAUUGUAAACAGAAAC
...((((((.............((..(((((((((-.((.((....)).)).))))))))).--.))((((((...))))))...............)))))).......... ( -27.70)
>DroEre_CAF1 2932 113 - 1
AAGGAAAUUAUCCGAUUUUUUUCCUUACCAUCGAUUUCGUAUAAAAAUGUACAUCGAUGGUAGUUGAUCUGGCAACGCCAGAGAUUCAAAUGUUAAGAAUUGUAAAUAGAAAC
..(((.....)))(((((((..(.(((((((((((...(((((....))))))))))))))))((((((((((...))))))...))))..)..)))))))............ ( -30.10)
>DroYak_CAF1 2638 113 - 1
AAUGAAGUGAUCAAAUUUUACUCCUUACCAUCGAUUUCGUAUUAAAAUGUACAUCGAUAAUCGUUGAUCUGGCAACGCCAGAGAUUCAAAUGCUAAGAAUUACAAAUAGAAAC
((((((((((.......))))).......((((((...((((......))))))))))..)))))..((((((...))))))(((((.........)))))............ ( -20.00)
>consensus
AUAGCAAUUAUCCGAUCUUAUUCCUUACCAUCGAUUUUAUAUGAAAAUGUACAUCGAUGGUC__UGGUCUGGCAACGCCAGAUAUUCAAAUGUUCAGAAUUGUAAAUAGAAAC
...((((((.................(((((((((..(((......)))...))))))))).....(((((((...)))))))..............)))))).......... (-19.78 = -20.18 +   0.40)

alignment

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secondary structure

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dotplot

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Window 2

Location 2,303,833 – 2,303,943
Length 110
Sequences 5
Columns 112
Reading direction reverse
Mean pairwise identity 82.21
Mean single sequence MFE -25.12
Consensus MFE -15.34
Energy contribution -14.46
Covariance contribution -0.88
Combinations/Pair 1.37
Mean z-score -1.91
Structure conservation index 0.61
SVM decision value 0.20
SVM RNA-class probability 0.630692
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2303833 110 - 22224390
CGUCAGUUGCUUAGUGUUCAUGAGCUUUCUGAAUAGCAAUUAUCCGAUCUUAUUCCUUAUCAUCGAUUUUAUAUGAAAAUGUACAUCGAUGAUC--UGGUCUGGCAACGCCA
.((((((((((....(((((.(......)))))))))))...............((..(((((((((..(((((....))))).))))))))).--.)).)))))....... ( -28.80)
>DroSec_CAF1 1820 109 - 1
CACCAGUAAUUUAGUGCUCAUGAUCAUUCUGAAUAGCAAUUAUCCGAUCUUAUUCCUUACCAUCGAU-UUAUAUGAAAAUGUACAUCGGUGGUC--UGGUCUGGCAACGCCA
.(((((........((((((.((....)))))...)))....................(((((((((-.(((((....))))).))))))))))--))))..(((...))). ( -28.00)
>DroSim_CAF1 2623 109 - 1
CACCAGUAAUUUAGUGCUCAUGAUCAUUCUGAAUAGCAAUUAUCCGAUCUUAUUCCUUACCAUCGAU-UUAUAUGAAAAUCUACAUCGGUGGUC--UGGUCUGGCAACGCCA
.(((((........((((((.((....)))))...)))....................(((((((((-.((.((....)).)).))))))))))--))))..(((...))). ( -23.90)
>DroEre_CAF1 2965 112 - 1
CAUCAAUAUUUUAGUUUUUAUGAGCGUUCUGAAAGGAAAUUAUCCGAUUUUUUUCCUUACCAUCGAUUUCGUAUAAAAAUGUACAUCGAUGGUAGUUGAUCUGGCAACGCCA
.((((((......((((....)))).......(((((((..(......)..)))))))(((((((((...(((((....)))))))))))))).))))))..(((...))). ( -27.70)
>DroYak_CAF1 2671 112 - 1
CAUCAAUAUUUUUGUUUUCACAAGUGUUCUGAAAUGAAGUGAUCAAAUUUUACUCCUUACCAUCGAUUUCGUAUUAAAAUGUACAUCGAUAAUCGUUGAUCUGGCAACGCCA
.((((((...((((...((((.....(((......))))))).))))..............((((((...((((......))))))))))....))))))..(((...))). ( -17.20)
>consensus
CAUCAGUAAUUUAGUGUUCAUGAGCAUUCUGAAUAGCAAUUAUCCGAUCUUAUUCCUUACCAUCGAUUUUAUAUGAAAAUGUACAUCGAUGGUC__UGGUCUGGCAACGCCA
.((((.........((((((.((....)))))))).......................(((((((((..(((......)))...)))))))))...))))..(((...))). (-15.34 = -14.46 +  -0.88)

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 09:54:39 2006