Locus 2603

Sequence ID 2L_DroMel_CAF1
Location 7,204,516 – 7,204,676
Length 160
Max. P 0.992155
window4145 window4146 window4147 window4148 window4149

overview

Window 5

Location 7,204,516 – 7,204,618
Length 102
Sequences 5
Columns 102
Reading direction forward
Mean pairwise identity 93.24
Mean single sequence MFE -20.82
Consensus MFE -17.48
Energy contribution -17.68
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -1.37
Structure conservation index 0.84
SVM decision value 0.28
SVM RNA-class probability 0.667448
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7204516 102 + 22407834
UAAAUGAGUUAAACACUGUUUGGUAUCGCAUAGUUUACGUUUAUUUUGUUUGAGAAAUGUCUAGAACACCAAUAAAGUAAAUUCAGUAGCAAACAAGUUGGA
...........(((..((((((.(((.(...(((((((.((((((.(((((.(((....))).)))))..)))))))))))))).))).)))))).)))... ( -18.70)
>DroSec_CAF1 22129 102 + 1
UUAAUAAGCUAAAUACUGUUUGGUAUCGCAUAGUUUACGUUUAUUUUGUUUGAGAAAUGUCUAGAACACCAAUAAAGUAAAUUCAGUAGCAAACAAGUGGGG
.............(((((((((.(((.(...(((((((.((((((.(((((.(((....))).)))))..)))))))))))))).))).))))).))))... ( -20.20)
>DroSim_CAF1 35358 102 + 1
UUAAUAAGUUAAACACUGUUUGGUAUCGCAUAGUUUACGUUUAUUUUGUUUGAGAAAUGUCUAGAACACCAAUAAAGUAAAUUCAGUAGCAAACAAGUGGGG
.............(((((((((.(((.(...(((((((.((((((.(((((.(((....))).)))))..)))))))))))))).))).))))).))))... ( -22.50)
>DroEre_CAF1 47443 102 + 1
UAAAAAAGUCAACCUUUGUUUGGUAUCGCAUAGUUUACGUUUAUUUUGUUUGAGAAAUGUCUAGAACACCAAUAAAGUAAAUUCAGUAGCAAACAAGUGGGA
............((((((((((.(((.(...(((((((.((((((.(((((.(((....))).)))))..)))))))))))))).))).)))))))).)).. ( -23.00)
>DroYak_CAF1 37759 102 + 1
UAAAAAACUUUACCCUUAUUUGGUAUCGCAUAGUUUACGUUUAUUUUGUUUGAGAAAUGUCUAGAACACCAAUAAAGUAAAUUCAGUAGCAAACAAGUGGGA
............(((((.((((.(((.(...(((((((.((((((.(((((.(((....))).)))))..)))))))))))))).))).)))).))).)).. ( -19.70)
>consensus
UAAAUAAGUUAAACACUGUUUGGUAUCGCAUAGUUUACGUUUAUUUUGUUUGAGAAAUGUCUAGAACACCAAUAAAGUAAAUUCAGUAGCAAACAAGUGGGA
................((((((.(((.(...(((((((.((((((.(((((.(((....))).)))))..)))))))))))))).))).))))))....... (-17.48 = -17.68 +   0.20)

alignment

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secondary structure

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dotplot

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Window 6

Location 7,204,516 – 7,204,618
Length 102
Sequences 5
Columns 102
Reading direction reverse
Mean pairwise identity 93.24
Mean single sequence MFE -16.56
Consensus MFE -14.92
Energy contribution -14.52
Covariance contribution -0.40
Combinations/Pair 1.07
Mean z-score -1.35
Structure conservation index 0.90
SVM decision value 0.81
SVM RNA-class probability 0.855388
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7204516 102 - 22407834
UCCAACUUGUUUGCUACUGAAUUUACUUUAUUGGUGUUCUAGACAUUUCUCAAACAAAAUAAACGUAAACUAUGCGAUACCAAACAGUGUUUAACUCAUUUA
...((((((((((.((.((..(((((((((((..((((..(((....)))..)))).)))))).))))).....)).)).))))))).)))........... ( -15.80)
>DroSec_CAF1 22129 102 - 1
CCCCACUUGUUUGCUACUGAAUUUACUUUAUUGGUGUUCUAGACAUUUCUCAAACAAAAUAAACGUAAACUAUGCGAUACCAAACAGUAUUUAGCUUAUUAA
....(((.(((((.((.((..(((((((((((..((((..(((....)))..)))).)))))).))))).....)).)).)))))))).............. ( -14.90)
>DroSim_CAF1 35358 102 - 1
CCCCACUUGUUUGCUACUGAAUUUACUUUAUUGGUGUUCUAGACAUUUCUCAAACAAAAUAAACGUAAACUAUGCGAUACCAAACAGUGUUUAACUUAUUAA
...((((.(((((.((.((..(((((((((((..((((..(((....)))..)))).)))))).))))).....)).)).)))))))))............. ( -17.40)
>DroEre_CAF1 47443 102 - 1
UCCCACUUGUUUGCUACUGAAUUUACUUUAUUGGUGUUCUAGACAUUUCUCAAACAAAAUAAACGUAAACUAUGCGAUACCAAACAAAGGUUGACUUUUUUA
..((..(((((((.((.((..(((((((((((..((((..(((....)))..)))).)))))).))))).....)).)).))))))).))............ ( -16.00)
>DroYak_CAF1 37759 102 - 1
UCCCACUUGUUUGCUACUGAAUUUACUUUAUUGGUGUUCUAGACAUUUCUCAAACAAAAUAAACGUAAACUAUGCGAUACCAAAUAAGGGUAAAGUUUUUUA
..((.((((((((.((.((..(((((((((((..((((..(((....)))..)))).)))))).))))).....)).)).))))))))))............ ( -18.70)
>consensus
UCCCACUUGUUUGCUACUGAAUUUACUUUAUUGGUGUUCUAGACAUUUCUCAAACAAAAUAAACGUAAACUAUGCGAUACCAAACAGUGUUUAACUUAUUUA
......(((((((.((.((..(((((((((((..((((..(((....)))..)))).)))))).))))).....)).)).)))))))............... (-14.92 = -14.52 +  -0.40)

alignment

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secondary structure

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dotplot

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Window 7

Location 7,204,541 – 7,204,658
Length 117
Sequences 5
Columns 117
Reading direction forward
Mean pairwise identity 98.21
Mean single sequence MFE -25.50
Consensus MFE -24.64
Energy contribution -24.68
Covariance contribution 0.04
Combinations/Pair 1.02
Mean z-score -1.60
Structure conservation index 0.97
SVM decision value 1.59
SVM RNA-class probability 0.966334
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7204541 117 + 22407834
UCGCAUAGUUUACGUUUAUUUUGUUUGAGAAAUGUCUAGAACACCAAUAAAGUAAAUUCAGUAGCAAACAAGUUGGAUUAGUAAUAUUAAAUAUCCACUUGUCGUUCGCAUUUAUUG
..((..(((((((.((((((.(((((.(((....))).)))))..)))))))))))))..(.(((..((((((.((((...((....))...)))))))))).))))))........ ( -23.10)
>DroSec_CAF1 22154 117 + 1
UCGCAUAGUUUACGUUUAUUUUGUUUGAGAAAUGUCUAGAACACCAAUAAAGUAAAUUCAGUAGCAAACAAGUGGGGUUAGUAUUAUUAAAUAUCCACUUGUCGUUCGCAUUUAUUG
..((..(((((((.((((((.(((((.(((....))).)))))..)))))))))))))..(.(((..(((((((((.(((((...)))))...))))))))).))))))........ ( -26.60)
>DroSim_CAF1 35383 117 + 1
UCGCAUAGUUUACGUUUAUUUUGUUUGAGAAAUGUCUAGAACACCAAUAAAGUAAAUUCAGUAGCAAACAAGUGGGGUUAGUAUUAUUAAAUAUCCACUUGUCGUUCGCAUUUAUUG
..((..(((((((.((((((.(((((.(((....))).)))))..)))))))))))))..(.(((..(((((((((.(((((...)))))...))))))))).))))))........ ( -26.60)
>DroEre_CAF1 47468 117 + 1
UCGCAUAGUUUACGUUUAUUUUGUUUGAGAAAUGUCUAGAACACCAAUAAAGUAAAUUCAGUAGCAAACAAGUGGGAUUAGUACUAUUAAAUAUCCACUUGUCGCUCGCAUUUAUUG
..((..(((((((.((((((.(((((.(((....))).)))))..)))))))))))))..(.(((..(((((((((.(((((...)))))...))))))))).))))))........ ( -26.80)
>DroYak_CAF1 37784 117 + 1
UCGCAUAGUUUACGUUUAUUUUGUUUGAGAAAUGUCUAGAACACCAAUAAAGUAAAUUCAGUAGCAAACAAGUGGGAUUAGUAUUAUUAAAUAUCCACUUGUCGUUCGCAUUUAUUG
..((..(((((((.((((((.(((((.(((....))).)))))..)))))))))))))..(.(((..(((((((((.(((((...)))))...))))))))).))))))........ ( -24.40)
>consensus
UCGCAUAGUUUACGUUUAUUUUGUUUGAGAAAUGUCUAGAACACCAAUAAAGUAAAUUCAGUAGCAAACAAGUGGGAUUAGUAUUAUUAAAUAUCCACUUGUCGUUCGCAUUUAUUG
..((..(((((((.((((((.(((((.(((....))).)))))..)))))))))))))..(.(((..(((((((((.(((((...)))))...))))))))).))))))........ (-24.64 = -24.68 +   0.04)

alignment

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secondary structure

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dotplot

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Window 8

Location 7,204,541 – 7,204,658
Length 117
Sequences 5
Columns 117
Reading direction reverse
Mean pairwise identity 98.21
Mean single sequence MFE -23.20
Consensus MFE -21.33
Energy contribution -21.53
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -2.04
Structure conservation index 0.92
SVM decision value 2.31
SVM RNA-class probability 0.992155
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7204541 117 - 22407834
CAAUAAAUGCGAACGACAAGUGGAUAUUUAAUAUUACUAAUCCAACUUGUUUGCUACUGAAUUUACUUUAUUGGUGUUCUAGACAUUUCUCAAACAAAAUAAACGUAAACUAUGCGA
........((((((((....(((((..............)))))..)))))))).......(((((((((((..((((..(((....)))..)))).)))))).)))))........ ( -21.74)
>DroSec_CAF1 22154 117 - 1
CAAUAAAUGCGAACGACAAGUGGAUAUUUAAUAAUACUAACCCCACUUGUUUGCUACUGAAUUUACUUUAUUGGUGUUCUAGACAUUUCUCAAACAAAAUAAACGUAAACUAUGCGA
.......((((...(((((((((...................)))))))))..........(((((((((((..((((..(((....)))..)))).)))))).)))))...)))). ( -22.61)
>DroSim_CAF1 35383 117 - 1
CAAUAAAUGCGAACGACAAGUGGAUAUUUAAUAAUACUAACCCCACUUGUUUGCUACUGAAUUUACUUUAUUGGUGUUCUAGACAUUUCUCAAACAAAAUAAACGUAAACUAUGCGA
.......((((...(((((((((...................)))))))))..........(((((((((((..((((..(((....)))..)))).)))))).)))))...)))). ( -22.61)
>DroEre_CAF1 47468 117 - 1
CAAUAAAUGCGAGCGACAAGUGGAUAUUUAAUAGUACUAAUCCCACUUGUUUGCUACUGAAUUUACUUUAUUGGUGUUCUAGACAUUUCUCAAACAAAAUAAACGUAAACUAUGCGA
.......((((((((((((((((...................))))))).)))))......(((((((((((..((((..(((....)))..)))).)))))).)))))...)))). ( -26.41)
>DroYak_CAF1 37784 117 - 1
CAAUAAAUGCGAACGACAAGUGGAUAUUUAAUAAUACUAAUCCCACUUGUUUGCUACUGAAUUUACUUUAUUGGUGUUCUAGACAUUUCUCAAACAAAAUAAACGUAAACUAUGCGA
.......((((...(((((((((...................)))))))))..........(((((((((((..((((..(((....)))..)))).)))))).)))))...)))). ( -22.61)
>consensus
CAAUAAAUGCGAACGACAAGUGGAUAUUUAAUAAUACUAAUCCCACUUGUUUGCUACUGAAUUUACUUUAUUGGUGUUCUAGACAUUUCUCAAACAAAAUAAACGUAAACUAUGCGA
.......((((...(((((((((...................)))))))))..........(((((((((((..((((..(((....)))..)))).)))))).)))))...)))). (-21.33 = -21.53 +   0.20)

alignment

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secondary structure

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dotplot

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Window 9

Location 7,204,578 – 7,204,676
Length 98
Sequences 5
Columns 98
Reading direction reverse
Mean pairwise identity 96.43
Mean single sequence MFE -21.78
Consensus MFE -18.73
Energy contribution -18.69
Covariance contribution -0.04
Combinations/Pair 1.04
Mean z-score -1.80
Structure conservation index 0.86
SVM decision value 1.30
SVM RNA-class probability 0.939443
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7204578 98 - 22407834
CAGAAGAGCCAUAAGAAGCAAUAAAUGCGAACGACAAGUGGAUAUUUAAUAUUACUAAUCCAACUUGUUUGCUACUGAAUUUACUUUAUUGGUGUUCU
.((((..((((.(((..(((.....)))....(((((((((((..............)))).)))))))..............)))...)))).)))) ( -19.64)
>DroSec_CAF1 22191 98 - 1
CAGGAAGGCCAUAAGAAGCAAUAAAUGCGAACGACAAGUGGAUAUUUAAUAAUACUAACCCCACUUGUUUGCUACUGAAUUUACUUUAUUGGUGUUCU
..((((.((((.(((..(((.....)))....(((((((((...................)))))))))..............)))...)))).)))) ( -23.31)
>DroSim_CAF1 35420 98 - 1
CAGGAAAGCCAUAAGAAGCAAUAAAUGCGAACGACAAGUGGAUAUUUAAUAAUACUAACCCCACUUGUUUGCUACUGAAUUUACUUUAUUGGUGUUCU
..((((.((((.(((..(((.....)))....(((((((((...................)))))))))..............)))...)))).)))) ( -21.21)
>DroEre_CAF1 47505 98 - 1
CAGGAAAGCCAUAAGAAGCAAUAAAUGCGAGCGACAAGUGGAUAUUUAAUAGUACUAAUCCCACUUGUUUGCUACUGAAUUUACUUUAUUGGUGUUCU
..((((.((((.(((..(((.....))).((((((((((((...................))))))).)))))..........)))...)))).)))) ( -25.01)
>DroYak_CAF1 37821 98 - 1
CAGAAAAGCCAUAAGAAGCAAUAAAUGCGAACGACAAGUGGAUAUUUAAUAAUACUAAUCCCACUUGUUUGCUACUGAAUUUACUUUAUUGGUGUUCU
.((((..((((.(((..(((.....)))....(((((((((...................)))))))))..............)))...)))).)))) ( -19.71)
>consensus
CAGGAAAGCCAUAAGAAGCAAUAAAUGCGAACGACAAGUGGAUAUUUAAUAAUACUAAUCCCACUUGUUUGCUACUGAAUUUACUUUAUUGGUGUUCU
.((((..((((.(((..(((.....)))....(((((((((...................)))))))))..............)))...)))).)))) (-18.73 = -18.69 +  -0.04)

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 10:31:42 2006