Locus 3712

Sequence ID 3R_DroMel_CAF1
Location 10,087,241 – 10,087,430
Length 189
Max. P 0.772464
window5947 window5948

overview

Window 7

Location 10,087,241 – 10,087,353
Length 112
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 81.50
Mean single sequence MFE -36.73
Consensus MFE -21.86
Energy contribution -22.53
Covariance contribution 0.67
Combinations/Pair 1.17
Mean z-score -1.88
Structure conservation index 0.60
SVM decision value 0.07
SVM RNA-class probability 0.566775
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10087241 112 - 27905053
UUACGACAAGACCAAGAAGGCUGCCUAUAAGGCGGCUUGUGCGGCAGUGGAGGCCAAGCAAAAGGCUCAAAGGAUGCAAAGGGCGA--------UUAGCUCUGCAUCCUCUUCAAGCUAG
............((...((((((((.....)))))))).)).(((..((((((((........)))....((((((((..((((..--------...))))))))))))))))).))).. ( -41.20)
>DroVir_CAF1 198950 119 - 1
CUUCGAGAAGACCAAAAAGGCCGCCUACAAAGCAGCCUGUUCGGCGGUCGAGGCCAAGCAGAAGGCGCAAAGGAGUCGACGGCGAACCGGUGGACCCGCACAGGGUUCUCUUUAA-UUAU
....((((..(((....((((.((.......)).))))(((((.(.(((((..((..((.......))...))..))))).)))))).)))((((((.....))))))))))...-.... ( -40.90)
>DroSec_CAF1 145970 112 - 1
UUACGAAAAGACCAAGCAGGCUGCCUACAAGGCGGCUUGUGCGGCAGUGGAGGCCAAGAAAAAGGCUCAAAUGAUGCAAACGUAGA--------UCAGCUCUGCAUCCUCUUCAAGUUAG
.........(.((..((((((((((.....))))))))))..))).(.(((((((........)))......((((((...((...--------...))..)))))))))).)....... ( -35.20)
>DroSim_CAF1 147876 112 - 1
UUACGAAAAGACCAAGCAGGCUGCCUACAAGGCGGCUUGUGCGGCAGUGGAGGCCAAGAAAAAGGCUCAAAUGAUGCAAACGUAGA--------UCAGCUCUGCAUCCUCUUCAAGUUAG
.........(.((..((((((((((.....))))))))))..))).(.(((((((........)))......((((((...((...--------...))..)))))))))).)....... ( -35.20)
>DroEre_CAF1 158291 111 - 1
UUACGACAAGACCAAGAAGGCUGCCUACAAGGCGGCUUGUGCGGCAGUGGAGGCCAAGCAAAAGGCUCAAAGGAUGCAAAGGGAAA--------UCAGCUCCGCCUCC-CUUCAAGCUAA
...............((((((((((((((((....)))))).))))))((((((..(((.....)))....(((.((.........--------...)))))))))))-))))....... ( -37.80)
>DroYak_CAF1 153226 111 - 1
UUACGACAAGACCAAGAAAGCUGCCUACAAGGCGGCUUGUGCGGCAGUGGAGGCCAAGCAAAAGGCUCAAAGGAUGCAAAGGGAAA--------UCAGCGAGGCAGAG-CUUGAAGCUAA
...(..((...((....((((((((.....))))))))....))...))..)....(((...((((((....(((..........)--------)).((...)).)))-)))...))).. ( -30.10)
>consensus
UUACGACAAGACCAAGAAGGCUGCCUACAAGGCGGCUUGUGCGGCAGUGGAGGCCAAGCAAAAGGCUCAAAGGAUGCAAAGGGAAA________UCAGCUCUGCAUCCUCUUCAAGCUAG
.........(.((....((((((((.....))))))))....)))..((((((((........)))......(((((.........................)))))..)))))...... (-21.86 = -22.53 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 10,087,313 – 10,087,430
Length 117
Sequences 6
Columns 117
Reading direction reverse
Mean pairwise identity 80.68
Mean single sequence MFE -44.45
Consensus MFE -28.09
Energy contribution -28.12
Covariance contribution 0.03
Combinations/Pair 1.26
Mean z-score -1.96
Structure conservation index 0.63
SVM decision value 0.53
SVM RNA-class probability 0.772464
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10087313 117 - 27905053
GAGAAGGGGCAGCUGUUGGAGGCGGCCAAUCGGAGAGUGGAGAGCAUCUCCAGACAAGUGGUCGCUGCCAGGCAGGAUUACGACAAGACCAAGAAGGCUGCCUAUAAGGCGGCUUGU
........(((((((((..((((((((....(((((((.....)).)))))......((((((.((((...))))))))))..............))))))))....)))))).))) ( -45.80)
>DroVir_CAF1 199029 117 - 1
GAGAAGACGCAGCUGCUGGAAGCGGCCAAGAAUCGUGUGGAGAGCUUAGCCCGCCAGCUCGCCUUGGCCAAGCAGGACUUCGAGAAGACCAAAAAGGCCGCCUACAAAGCAGCCUGU
........(((((((((....((((((................((((.(((.((......))...))).)))).((.(((....))).)).....))))))......))))).)))) ( -38.90)
>DroSec_CAF1 146042 117 - 1
GAGAAGGGUCAGCUGUUGGAGGCGGCCAAUCGGAGAGUGGAGGGCAUCUCCAGGCAAGUGGGCGCUGCCAGGCAGGAUUACGAAAAGACCAAGCAGGCUGCCUACAAGGCGGCUUGU
......((((.(((..(((.((((.(((.(((((((((.....)).))))).))....))).)))).)))))).(.....).....))))..((((((((((.....)))))))))) ( -47.90)
>DroSim_CAF1 147948 117 - 1
GAGAAGGGUCAGCUGUUGGAGGCGGCCAAUCGGAGAGUGGAGGGCAUCUCCAGGCAAGUGGGCGCUGCCAGGCAGGAUUACGAAAAGACCAAGCAGGCUGCCUACAAGGCGGCUUGU
......((((.(((..(((.((((.(((.(((((((((.....)).))))).))....))).)))).)))))).(.....).....))))..((((((((((.....)))))))))) ( -47.90)
>DroEre_CAF1 158362 117 - 1
GAAAAGGGGCAUCUGCUGGAGGCUGCCAAUCGGAGAAUGGAGUGCGUCUACAGGCAGGUCCUCGCUGCCAGGCAGGAUUACGACAAGACCAAGAAGGCUGCCUACAAGGCGGCUUGU
.....((((.((((((((((.((..(((.((...)).)))...)).)))...)))))))))))((((((((((((.....(.....).((.....))))))))....)))))).... ( -43.80)
>DroMoj_CAF1 177781 117 - 1
GAGAAGACGCAGCUGCUGGAGGCGGCCAAGAAUCGAGUGGACAGCCUAUUGCGUCAGCUGAACUUGGCCAAGCAGGACUACGAUAAGACCAAGAAGGCGGCCUACAAAGCAGCCUGC
........(((((((((..(((((((((((..((.(((.(((.((.....))))).))))).))))))).....((.((......)).)).........))))....))))).)))) ( -42.40)
>consensus
GAGAAGGGGCAGCUGCUGGAGGCGGCCAAUCGGAGAGUGGAGAGCAUCUCCAGGCAAGUGGGCGCUGCCAGGCAGGAUUACGAAAAGACCAAGAAGGCUGCCUACAAGGCGGCUUGU
........(((((((((..((((((((.......(..(((...((..................))..)))..).((.((......)).)).....))))))))....)))))).))) (-28.09 = -28.12 +   0.03)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:08:08 2006