Locus 5992

Sequence ID 2R_DroMel_CAF1
Location 18,837,720 – 18,837,840
Length 120
Max. P 0.776051
window9608 window9609

overview

Window 8

Location 18,837,720 – 18,837,840
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 94.00
Mean single sequence MFE -26.23
Consensus MFE -21.58
Energy contribution -23.14
Covariance contribution 1.56
Combinations/Pair 1.03
Mean z-score -1.57
Structure conservation index 0.82
SVM decision value 0.54
SVM RNA-class probability 0.776051
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18837720 120 + 20766785
UAACCCAUCUGAUGGCCUAAAUCGAUAGUGGGCAAGAUAGAGAAGUAUCUGUAACACCUACGCAACGCUAUCACGAACAAGAUGAAUUCUAUCUUGCCACACAAUGAAAACGAAAUGAUU
......(((.(((.......)))))).(((((((((((((((...((((((((.....)))....((......))....)))))..)))))))))))).))).................. ( -28.70)
>DroSec_CAF1 11747 120 + 1
UAACCCAUCUGAUGGCCUAAAUCGAUAGUGGACAAGAUAGAGAAGUAUCUGUAACACCCACGCAACGCUAUCACGAACAAGAUGCAUUCUAUCUUGCCACACAAUGAAAACGGAAUGAUU
....(((((.(((.......)))))).((((.((((((((((..((((((...........((...))...........)))))).))))))))))))))...........))....... ( -28.45)
>DroSim_CAF1 11842 120 + 1
UAACCCAUCUGAUGGCCUAAAUCGAUAGUGGGCAAGAUAGAGAAGUAUCUGUAACACCUACGCAACGCUAUCACGAACAAGAUGCAUUCUAUCUUGCCACACAAUGAAAAUGAAAUGAUU
......(((.(((.......)))))).(((((((((((((((..(((((((((.....)))....((......))....)))))).)))))))))))).))).................. ( -30.60)
>DroEre_CAF1 15540 120 + 1
UAAGCCAUCUGAUGGCCUAAAUCGAUAGUGGGAAAGAUAGAGAAGUAUCUGUAACGCCUACGCAACGCUAUCACGGACAUGCUACAUUCUACCUUGCCACACAAUGAAAAUGAAAUGAUU
...(((((...)))))...(((((...((((..(((.(((((.(((((((((...((.........))....)))))..))))...))))).))).))))...((....))....))))) ( -21.70)
>DroYak_CAF1 11963 120 + 1
UAACCCAUCUGAUGGCCUAAAUCGAUAGUGGCGAAGAUAGAGAAGUAUCUGUAACACCUACGCAACGCUAUCACGGACAAGAUACAUUCUAUCUUAACACACAAUGAAAAUGAAAUGAUU
......(((.(((.......)))))).(((...(((((((((..(((((((((.....)))....((......))....)))))).)))))))))..))).................... ( -21.70)
>consensus
UAACCCAUCUGAUGGCCUAAAUCGAUAGUGGGCAAGAUAGAGAAGUAUCUGUAACACCUACGCAACGCUAUCACGAACAAGAUGCAUUCUAUCUUGCCACACAAUGAAAAUGAAAUGAUU
......(((.(((.......)))))).(((((((((((((((..(((((((((.....)))....((......))....)))))).)))))))))))).))).................. (-21.58 = -23.14 +   1.56)

alignment

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secondary structure

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dotplot

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Window 9

Location 18,837,720 – 18,837,840
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 94.00
Mean single sequence MFE -30.94
Consensus MFE -27.12
Energy contribution -26.48
Covariance contribution -0.64
Combinations/Pair 1.18
Mean z-score -1.30
Structure conservation index 0.88
SVM decision value 0.40
SVM RNA-class probability 0.721729
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18837720 120 - 20766785
AAUCAUUUCGUUUUCAUUGUGUGGCAAGAUAGAAUUCAUCUUGUUCGUGAUAGCGUUGCGUAGGUGUUACAGAUACUUCUCUAUCUUGCCCACUAUCGAUUUAGGCCAUCAGAUGGGUUA
.......(((........(((.(((((((((((...((((((((.(((....)))..))).))))).....((....))))))))))))))))...)))..(((.((((...)))).))) ( -31.60)
>DroSec_CAF1 11747 120 - 1
AAUCAUUCCGUUUUCAUUGUGUGGCAAGAUAGAAUGCAUCUUGUUCGUGAUAGCGUUGCGUGGGUGUUACAGAUACUUCUCUAUCUUGUCCACUAUCGAUUUAGGCCAUCAGAUGGGUUA
......(((((((.....(((.(((((((((((..((((((....((..((...))..)).))))))....((....))))))))))))))))....(((.......))))))))))... ( -31.60)
>DroSim_CAF1 11842 120 - 1
AAUCAUUUCAUUUUCAUUGUGUGGCAAGAUAGAAUGCAUCUUGUUCGUGAUAGCGUUGCGUAGGUGUUACAGAUACUUCUCUAUCUUGCCCACUAUCGAUUUAGGCCAUCAGAUGGGUUA
..................(((.(((((((((((..(((((((((.(((....)))..))).))))))....((....))))))))))))))))........(((.((((...)))).))) ( -33.00)
>DroEre_CAF1 15540 120 - 1
AAUCAUUUCAUUUUCAUUGUGUGGCAAGGUAGAAUGUAGCAUGUCCGUGAUAGCGUUGCGUAGGCGUUACAGAUACUUCUCUAUCUUUCCCACUAUCGAUUUAGGCCAUCAGAUGGCUUA
...............((((.((((.((((((((.((((((..(((((..((...))..))..)))))))))((....))))))))))..))))...)))).((((((((...)))))))) ( -30.70)
>DroYak_CAF1 11963 120 - 1
AAUCAUUUCAUUUUCAUUGUGUGUUAAGAUAGAAUGUAUCUUGUCCGUGAUAGCGUUGCGUAGGUGUUACAGAUACUUCUCUAUCUUCGCCACUAUCGAUUUAGGCCAUCAGAUGGGUUA
..................(((.((.((((((((..((((((.....((((((.(........).))))))))))))...)))))))).)))))........(((.((((...)))).))) ( -27.80)
>consensus
AAUCAUUUCAUUUUCAUUGUGUGGCAAGAUAGAAUGCAUCUUGUUCGUGAUAGCGUUGCGUAGGUGUUACAGAUACUUCUCUAUCUUGCCCACUAUCGAUUUAGGCCAUCAGAUGGGUUA
.......((((((.....(((.(((((((((((........((((.((((((.(........).)))))).))))....))))))))))))))....(((.......))))))))).... (-27.12 = -26.48 +  -0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:59:50 2006