Locus 7538

Sequence ID 2L_DroMel_CAF1
Location 20,918,596 – 20,918,756
Length 160
Max. P 0.999814
window12119 window12120 window12121

overview

Window 9

Location 20,918,596 – 20,918,716
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 95.00
Mean single sequence MFE -30.98
Consensus MFE -26.58
Energy contribution -27.42
Covariance contribution 0.84
Combinations/Pair 1.03
Mean z-score -1.84
Structure conservation index 0.86
SVM decision value 1.62
SVM RNA-class probability 0.967908
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20918596 120 + 22407834
GAUGGUAUUUAUCAAAUACCACGGAUUUGUGAUGCACAGAACUCCUAUAAUUCCACUGAUUGUAAGAAAUAUCUGUAUGCAAUCGAGCAUCACUGCGGGCAGGAUUUCAUCCACUUGCCC
..(((((((.....))))))).......(((((((..((.....))..........(((((((((((....)))...)))))))).)))))))...(((((((..........))))))) ( -32.70)
>DroSec_CAF1 3950 120 + 1
GAUGGUAUUAAUCAAAUACCACGGAUUUGUGACGCACAAAACUCCUAUAAUUCCACUGAUUGAAAGAAAUAUUUGUAUGCAAUCGAGCAUCACUGCGGGCAGGAUUUCAUCCACUUGCCC
..(((((((.....))))))).(((((((((...))))))..)))...........((((((..(((....))).....)))))).(((....)))(((((((..........))))))) ( -26.50)
>DroSim_CAF1 3210 120 + 1
GAUGGUAUUAAUCAAAUACCACGGAUUUGUGAUGCACAGAACUCCUAUAAUUCCACUGAUUGACAGAAAUAUUUGUAUGCAAUCGAGCAUCACUGCGGGCAGGAUUUCAUCCACUUGCCC
..(((((((.....))))))).......(((((((..((.....))..........(((((((((((....)))))...)))))).)))))))...(((((((..........))))))) ( -31.60)
>DroEre_CAF1 3004 120 + 1
GAUGGUAUUAAUCAAAUACCAGGGAUUGGUGAUGCACAAAACCCCUAUAAUUCCACUGAUUGUGAGAAAUAUCUGUAUGCAAUCGAGCAUCACUGCGGGCAGGAUUUCGUCCACUUGCCC
..(((((((.....)))))))......((((((((...............((((((.....))).))).....((....)).....))))))))..(((((((..........))))))) ( -32.40)
>DroYak_CAF1 3007 120 + 1
GAUGGUAUUAAUCAAAUACCAGGGAUUUGUGAUGCACAAUACUCCUAUAAUUCCACUGAUUGUGAGAAAUAUCUGUAUGCAAUCUAGCAUCACUGCGGGCAGGAUUUCAUCCACUUGCCC
..(((((((.....))))))).......(((((((...((((....(((.((((((.....))).))).)))..))))........)))))))...(((((((..........))))))) ( -31.70)
>consensus
GAUGGUAUUAAUCAAAUACCACGGAUUUGUGAUGCACAAAACUCCUAUAAUUCCACUGAUUGUAAGAAAUAUCUGUAUGCAAUCGAGCAUCACUGCGGGCAGGAUUUCAUCCACUUGCCC
..(((((((.....))))))).......(((((((.......((.(((((((.....))))))).))......((....)).....)))))))...(((((((..........))))))) (-26.58 = -27.42 +   0.84)

alignment

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secondary structure

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dotplot

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Window 0

Location 20,918,596 – 20,918,716
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 95.00
Mean single sequence MFE -36.25
Consensus MFE -33.31
Energy contribution -32.95
Covariance contribution -0.36
Combinations/Pair 1.09
Mean z-score -2.55
Structure conservation index 0.92
SVM decision value 4.14
SVM RNA-class probability 0.999814
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20918596 120 - 22407834
GGGCAAGUGGAUGAAAUCCUGCCCGCAGUGAUGCUCGAUUGCAUACAGAUAUUUCUUACAAUCAGUGGAAUUAUAGGAGUUCUGUGCAUCACAAAUCCGUGGUAUUUGAUAAAUACCAUC
(((((...((((...)))))))))...(((((((..(((((.....(((....)))..))))).(..(((((.....)))))..))))))))......((((((((.....)))))))). ( -37.40)
>DroSec_CAF1 3950 120 - 1
GGGCAAGUGGAUGAAAUCCUGCCCGCAGUGAUGCUCGAUUGCAUACAAAUAUUUCUUUCAAUCAGUGGAAUUAUAGGAGUUUUGUGCGUCACAAAUCCGUGGUAUUUGAUUAAUACCAUC
(((((...((((...)))))))))...(((((((..(((((.................))))).(..(((((.....)))))..))))))))......((((((((.....)))))))). ( -33.63)
>DroSim_CAF1 3210 120 - 1
GGGCAAGUGGAUGAAAUCCUGCCCGCAGUGAUGCUCGAUUGCAUACAAAUAUUUCUGUCAAUCAGUGGAAUUAUAGGAGUUCUGUGCAUCACAAAUCCGUGGUAUUUGAUUAAUACCAUC
(((((...((((...)))))))))...(((((((..(((((...(((........)))))))).(..(((((.....)))))..))))))))......((((((((.....)))))))). ( -37.80)
>DroEre_CAF1 3004 120 - 1
GGGCAAGUGGACGAAAUCCUGCCCGCAGUGAUGCUCGAUUGCAUACAGAUAUUUCUCACAAUCAGUGGAAUUAUAGGGGUUUUGUGCAUCACCAAUCCCUGGUAUUUGAUUAAUACCAUC
(((((...(((.....))))))))...(((((((.(((..((...(..(((.(((.(((.....)))))).)))..).)).))).))))))).......(((((((.....))))))).. ( -37.40)
>DroYak_CAF1 3007 120 - 1
GGGCAAGUGGAUGAAAUCCUGCCCGCAGUGAUGCUAGAUUGCAUACAGAUAUUUCUCACAAUCAGUGGAAUUAUAGGAGUAUUGUGCAUCACAAAUCCCUGGUAUUUGAUUAAUACCAUC
(((((...((((...)))))))))...(((((((.....(((...(..(((.(((.(((.....)))))).)))..).)))....))))))).......(((((((.....))))))).. ( -35.00)
>consensus
GGGCAAGUGGAUGAAAUCCUGCCCGCAGUGAUGCUCGAUUGCAUACAGAUAUUUCUCACAAUCAGUGGAAUUAUAGGAGUUUUGUGCAUCACAAAUCCGUGGUAUUUGAUUAAUACCAUC
(((((...(((.....))))))))...(((((((..(((((.................))))).(..(((((.....)))))..)))))))).......(((((((.....))))))).. (-33.31 = -32.95 +  -0.36)

alignment

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secondary structure

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dotplot

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Window 1

Location 20,918,636 – 20,918,756
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 96.33
Mean single sequence MFE -34.64
Consensus MFE -30.78
Energy contribution -30.86
Covariance contribution 0.08
Combinations/Pair 1.06
Mean z-score -1.57
Structure conservation index 0.89
SVM decision value 1.14
SVM RNA-class probability 0.920785
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20918636 120 + 22407834
ACUCCUAUAAUUCCACUGAUUGUAAGAAAUAUCUGUAUGCAAUCGAGCAUCACUGCGGGCAGGAUUUCAUCCACUUGCCCCAAGUCCAUGGCAAAUCGAUUGAGGAUUCUGCCCGAUGGA
...........((((.(((((((((((....)))...)))))))).(((....)))(((((((((((((((...(((((..........)))))...)).))).))))))))))..)))) ( -35.40)
>DroSec_CAF1 3990 120 + 1
ACUCCUAUAAUUCCACUGAUUGAAAGAAAUAUUUGUAUGCAAUCGAGCAUCACUGCGGGCAGGAUUUCAUCCACUUGCCCCAAGUCCAUGGCAAAUCGAUUGAGGAUUCUGCCCGAGGGA
...........(((...................((.((((......))))))((.((((((((((((((((...(((((..........)))))...)).))).)))))))))))))))) ( -32.70)
>DroSim_CAF1 3250 120 + 1
ACUCCUAUAAUUCCACUGAUUGACAGAAAUAUUUGUAUGCAAUCGAGCAUCACUGCGGGCAGGAUUUCAUCCACUUGCCCCAAGUCCAUGGCAAAUCGAUUGAGGAUUCUGCCCGAGGGA
...........(((..(((((((((((....)))))...)))))).......((.((((((((((((((((...(((((..........)))))...)).))).)))))))))))))))) ( -34.60)
>DroEre_CAF1 3044 120 + 1
ACCCCUAUAAUUCCACUGAUUGUGAGAAAUAUCUGUAUGCAAUCGAGCAUCACUGCGGGCAGGAUUUCGUCCACUUGCCCCAAGUCCAUGGCAAAGCGAUUGAGGAUUCGGCCCGAGGGA
..((((....((((((.....))).)))......((((((......)))).))..(((((.((((((((..(.((((((..........))).))).)..))).))))).))))))))). ( -34.50)
>DroYak_CAF1 3047 120 + 1
ACUCCUAUAAUUCCACUGAUUGUGAGAAAUAUCUGUAUGCAAUCUAGCAUCACUGCGGGCAGGAUUUCAUCCACUUGCCCCAAGUCCAUGGCAAAUCGAUUGAGGAUUCUGCCCGAGGGA
..((((....((((((.....))).)))......((((((......)))).))..((((((((((((((((...(((((..........)))))...)).))).))))))))))))))). ( -36.00)
>consensus
ACUCCUAUAAUUCCACUGAUUGUAAGAAAUAUCUGUAUGCAAUCGAGCAUCACUGCGGGCAGGAUUUCAUCCACUUGCCCCAAGUCCAUGGCAAAUCGAUUGAGGAUUCUGCCCGAGGGA
..((((............................((((((......)))).))..((((((((((((((((...(((((..........)))))...)).))).))))))))))))))). (-30.78 = -30.86 +   0.08)

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 12:39:21 2006