Locus 7703

Sequence ID 3R_DroMel_CAF1
Location 20,682,483 – 20,682,619
Length 136
Max. P 0.639253
window12424 window12425

overview

Window 4

Location 20,682,483 – 20,682,583
Length 100
Sequences 6
Columns 102
Reading direction reverse
Mean pairwise identity 79.74
Mean single sequence MFE -26.55
Consensus MFE -17.40
Energy contribution -18.57
Covariance contribution 1.17
Combinations/Pair 1.14
Mean z-score -1.26
Structure conservation index 0.66
SVM decision value -0.04
SVM RNA-class probability 0.511954
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20682483 100 - 27905053
UAAACAGGUAUCCAGCA--UAACUAAGUUGGAUGAUUCGUGUCCUCUGGAGGACAGCAUGGCUUUGCAGGACCUUUUUGCUAGCAUAGACAGCCAAAAAUAC
......((((((((((.--.......)))))))...((.((((((....)))))).....(((..((((((...)))))).)))...))..)))........ ( -26.90)
>DroPse_CAF1 1673 100 - 1
CAAAGAGGUC--AAGCUGCUCAGAAAGUGCUACGACUCCUCACAAGUGAAGGCUGAAAUUUCACUGGUAGAUCUGUUUGCUGGCAUCGAUAUGGAUACAUUU
....((.(((--(.((....((((.....((((((....))...(((((((.......))))))).)))).))))...)))))).))............... ( -20.20)
>DroSec_CAF1 1645 100 - 1
CAAACAGGUAUCCAGCA--UAACUAAGUUGGAUGAUUCGUGUCCUCUGGAGGACAGUAUGGCUCUGCAAGAUCUGUUUGUAAGCAUAGAUAGCCAGAAAUAC
........((((((((.--.......)))))))).(((.((((((....))))))...(((((.......((((((........)))))))))))))).... ( -27.21)
>DroSim_CAF1 1661 100 - 1
UAAACAGGUAUCCAGCA--UAGCUAAGUUGGAUGAUUCGUGUCCUCUGGAGGACAGUAUGGCUCUGCAAGAUCUGUUUGUAAGCAUAGAUAGCCAAAAAUAC
......((((((((((.--.......)))))))...((.((((((....)))))).....(((.((((((.....)))))))))...))..)))........ ( -26.20)
>DroEre_CAF1 1674 100 - 1
CAAACAGGUCUCCAGCA--UUACUAAGUUGGAUGAUUCGUGUCCUCUGGAGGACAGUAUGGCUAUGCAAGAUCUGUUUGUUAGCAUAGACAGCCAAAAAUAU
((((((((((((((((.--.......)))))).......((((((....))))))((((....))))..))))))))))....................... ( -28.90)
>DroYak_CAF1 1628 100 - 1
CAAACAGGUCUCCAGCA--UAGGAAAGUUGGAUGAUUCGUGUCCUCUGGAGGACAGUAUGGCUAUGCAGGAUCUGUUUGCUAGCAUAGACAGCCAAAAAUAC
...((..(((((((((.--.......)))))).)))..))(((((....)))))....(((((((((((.(......).)).))))....)))))....... ( -29.90)
>consensus
CAAACAGGUAUCCAGCA__UAACUAAGUUGGAUGAUUCGUGUCCUCUGGAGGACAGUAUGGCUCUGCAAGAUCUGUUUGCUAGCAUAGACAGCCAAAAAUAC
(((((((((.((((((..........)))))).......((((((....))))))...............)))))))))....................... (-17.40 = -18.57 +   1.17)

alignment

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secondary structure

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dotplot

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Window 5

Location 20,682,521 – 20,682,619
Length 98
Sequences 6
Columns 100
Reading direction reverse
Mean pairwise identity 81.08
Mean single sequence MFE -31.42
Consensus MFE -17.03
Energy contribution -18.95
Covariance contribution 1.92
Combinations/Pair 1.13
Mean z-score -2.24
Structure conservation index 0.54
SVM decision value 0.22
SVM RNA-class probability 0.639253
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20682521 98 - 27905053
UCCGAACAUCGAGACGCCAGCUAUGAACAUGAUCUGUAAACAGGUAUCCAGCA--UAACUAAGUUGGAUGAUUCGUGUCCUCUGGAGGACAGCAUGGCUU
((((.....)).)).((((((((((((....(((((....)))))(((((((.--.......)))))))..)))))(((((....)))))))).)))).. ( -32.60)
>DroSec_CAF1 1683 98 - 1
UUCGAACAUCGAGACGCCAGCAAUGAAUAUGAUCUGCAAACAGGUAUCCAGCA--UAACUAAGUUGGAUGAUUCGUGUCCUCUGGAGGACAGUAUGGCUC
((((.....))))..((((((.((((((...(((((....)))))(((((((.--.......))))))).))))))(((((....))))).)).)))).. ( -31.60)
>DroSim_CAF1 1699 98 - 1
UCCGAACAUCGAGACGCCAGCUAUGAAUAUGAUCUGUAAACAGGUAUCCAGCA--UAGCUAAGUUGGAUGAUUCGUGUCCUCUGGAGGACAGUAUGGCUC
..((((((((..(((...(((((((......(((((....)))))......))--)))))..))).)))).))))((((((....))))))......... ( -33.10)
>DroEre_CAF1 1712 98 - 1
UCCGAGUAUCGAGACGCCAGCUAUGAACAUGAUCUGCAAACAGGUCUCCAGCA--UUACUAAGUUGGAUGAUUCGUGUCCUCUGGAGGACAGUAUGGCUA
((((.....)).)).((((((((((((((.((((((....))))))((((((.--.......)))))))).)))))(((((....)))))))).)))).. ( -31.70)
>DroYak_CAF1 1666 98 - 1
UCCGUACAUCGAGACGCCAGCUAUGAACCUGAUCUGCAAACAGGUCUCCAGCA--UAGGAAAGUUGGAUGAUUCGUGUCCUCUGGAGGACAGUAUGGCUA
.((((((..((((.((((((((........((((((....))))))(((....--..))).)))))).)).))))((((((....))))))))))))... ( -35.60)
>DroPer_CAF1 1723 98 - 1
UCCCCAAAUGGAGUCGCCAGCCAUGAAUGAGAUUUGCAAAGAGGUC--AAGCUGCUCAGAAAGUGCUACGACUCCUCACAAGUGAAGGCUGAAAUUUCAC
.........(((((((..(((.((...((((....((.........--..))..))))....))))).)))))))......((((((.......)))))) ( -23.90)
>consensus
UCCGAACAUCGAGACGCCAGCUAUGAACAUGAUCUGCAAACAGGUAUCCAGCA__UAACUAAGUUGGAUGAUUCGUGUCCUCUGGAGGACAGUAUGGCUC
..((.....))....((((((((((((....(((((....))))).((((((..........))))))...)))))(((((....)))))))).)))).. (-17.03 = -18.95 +   1.92)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:52:30 2006