Locus 5710

Sequence ID 3L_DroMel_CAF1
Location 15,593,856 – 15,594,016
Length 160
Max. P 0.977232
window9034 window9035 window9036

overview

Window 4

Location 15,593,856 – 15,593,976
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 96.17
Mean single sequence MFE -20.96
Consensus MFE -17.37
Energy contribution -18.05
Covariance contribution 0.68
Combinations/Pair 1.07
Mean z-score -2.09
Structure conservation index 0.83
SVM decision value 1.41
SVM RNA-class probability 0.951675
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15593856 120 + 23771897
UGCAUCGCCAUUGCCAUUGCAAUUUGCACUUUAAUAAACCUGAUAGAGCACCGCAAAUGUUAAUUACAUUUGCAAAUGCAAUCAAUAUCGAACUGCCUAAUUUAAUUAACCAAUCGCUAA
.((((((..((((..((((((...(((.(((((.......))).)).)))..((((((((.....))))))))...))))))))))..)))..)))........................ ( -23.10)
>DroSec_CAF1 17175 120 + 1
UGCAUCGCCAUUGCCAUUGCAAUUUGCACUUUAAUAAACCUGAUAAAGCACCGCAAAUGUUAAUUACAUUUGCAAAUGCAAUCAAUAUCGAACUGCCUAAUUUAAUUAACCAAUCGCUAA
.((((((..((((..((((((.......(((((.((....)).)))))....((((((((.....))))))))...))))))))))..)))..)))........................ ( -22.00)
>DroSim_CAF1 17180 120 + 1
UGCAUCACCAUUGCCAUUGCAAUUUGCACUUUAAUAAACCCGAUAAAGCACCGCAAAUGUUAAUUACAUUUGCAAAUGCAAUCAAUAUCGAACUGCCUAAUUUAAUUAACCAAUCGCUAA
((((.....(((((....))))).))))..................(((...((((((((.....))))))))....(((.((......))..)))...................))).. ( -20.00)
>DroEre_CAF1 17315 120 + 1
UGCAUCGCCAUUGCCAUUGCAAUUUGCACUUUAAUAAACCUGAUAAAGCACCCCAAAUGUUAAUUACUUUUGCAAAUGCAAUCAGUAUCGAACUGCCUAAUUUAAUUAACCAAUCGCUAA
.((((((..((((..((((((.(((((((((((.((....)).)))))..........((.....))...))))))))))))))))..)))..)))........................ ( -17.00)
>DroYak_CAF1 18531 120 + 1
UGCAUCGCCGUUGCCAUUGCAAUUUGCACUGUAAUAAACCUGAUGAAGCACCGCAAAUGUUAAUUACUUUUGCAAAUGCAAUCAAUAUCGAACAGCCUAAUUGAAUUAACCAAUCGCUAA
....(((..((((..((((((.((((((..(((((.(((.((.((......))))...))).)))))...))))))))))))))))..)))..(((...((((.......)))).))).. ( -22.70)
>consensus
UGCAUCGCCAUUGCCAUUGCAAUUUGCACUUUAAUAAACCUGAUAAAGCACCGCAAAUGUUAAUUACAUUUGCAAAUGCAAUCAAUAUCGAACUGCCUAAUUUAAUUAACCAAUCGCUAA
.((((((..((((..((((((...(((....................)))..((((((((.....))))))))...))))))))))..)))..)))........................ (-17.37 = -18.05 +   0.68)

alignment

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secondary structure

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dotplot

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Window 5

Location 15,593,856 – 15,593,976
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 96.17
Mean single sequence MFE -30.32
Consensus MFE -26.48
Energy contribution -27.20
Covariance contribution 0.72
Combinations/Pair 1.08
Mean z-score -1.89
Structure conservation index 0.87
SVM decision value 1.79
SVM RNA-class probability 0.977232
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15593856 120 - 23771897
UUAGCGAUUGGUUAAUUAAAUUAGGCAGUUCGAUAUUGAUUGCAUUUGCAAAUGUAAUUAACAUUUGCGGUGCUCUAUCAGGUUUAUUAAAGUGCAAAUUGCAAUGGCAAUGGCGAUGCA
...((.((((..............(((.((..((((((((.(((((.((((((((.....)))))))))))))...)))))...)))..)).)))..(((((....)))))..)))))). ( -32.10)
>DroSec_CAF1 17175 120 - 1
UUAGCGAUUGGUUAAUUAAAUUAGGCAGUUCGAUAUUGAUUGCAUUUGCAAAUGUAAUUAACAUUUGCGGUGCUUUAUCAGGUUUAUUAAAGUGCAAAUUGCAAUGGCAAUGGCGAUGCA
...(((((((.(((((...))))).))))(((.(((((((((((..(((((((((.....)))))))))(..(((((..........)))))..)....))))))..))))).)))))). ( -32.50)
>DroSim_CAF1 17180 120 - 1
UUAGCGAUUGGUUAAUUAAAUUAGGCAGUUCGAUAUUGAUUGCAUUUGCAAAUGUAAUUAACAUUUGCGGUGCUUUAUCGGGUUUAUUAAAGUGCAAAUUGCAAUGGCAAUGGUGAUGCA
...(((((((.(((((...))))).))))(((.(((((((((((..(((((((((.....)))))))))(..(((((..........)))))..)....))))))..))))).)))))). ( -30.90)
>DroEre_CAF1 17315 120 - 1
UUAGCGAUUGGUUAAUUAAAUUAGGCAGUUCGAUACUGAUUGCAUUUGCAAAAGUAAUUAACAUUUGGGGUGCUUUAUCAGGUUUAUUAAAGUGCAAAUUGCAAUGGCAAUGGCGAUGCA
...((.((((..............(((.((..((((((((.((((((.((((.((.....)).))))))))))...)))))...)))..)).)))..(((((....)))))..)))))). ( -27.00)
>DroYak_CAF1 18531 120 - 1
UUAGCGAUUGGUUAAUUCAAUUAGGCUGUUCGAUAUUGAUUGCAUUUGCAAAAGUAAUUAACAUUUGCGGUGCUUCAUCAGGUUUAUUACAGUGCAAAUUGCAAUGGCAACGGCGAUGCA
...((((((((.....))))))..(((((......(((((.(((((.(((((.((.....)).))))))))))...))))).......)))))))..(((((...(....).)))))... ( -29.12)
>consensus
UUAGCGAUUGGUUAAUUAAAUUAGGCAGUUCGAUAUUGAUUGCAUUUGCAAAUGUAAUUAACAUUUGCGGUGCUUUAUCAGGUUUAUUAAAGUGCAAAUUGCAAUGGCAAUGGCGAUGCA
...((.((((..............(((.((..((((((((.(((((.((((((((.....)))))))))))))...)))))...)))..)).)))..(((((....)))))..)))))). (-26.48 = -27.20 +   0.72)

alignment

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secondary structure

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dotplot

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Window 6

Location 15,593,896 – 15,594,016
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 94.50
Mean single sequence MFE -26.02
Consensus MFE -21.06
Energy contribution -21.46
Covariance contribution 0.40
Combinations/Pair 1.06
Mean z-score -1.40
Structure conservation index 0.81
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15593896 120 - 23771897
CCUACAAUUUUAAUCAACUUGGCCACGCGGCAAAUAAAACUUAGCGAUUGGUUAAUUAAAUUAGGCAGUUCGAUAUUGAUUGCAUUUGCAAAUGUAAUUAACAUUUGCGGUGCUCUAUCA
...........((((((....(((....))).............((((((.(((((...))))).))).)))...))))))(((((.((((((((.....)))))))))))))....... ( -26.70)
>DroSec_CAF1 17215 120 - 1
CCUACAAUUUUAAUCAACUUGGCCACGCGGCAAAUAAAAUUUAGCGAUUGGUUAAUUAAAUUAGGCAGUUCGAUAUUGAUUGCAUUUGCAAAUGUAAUUAACAUUUGCGGUGCUUUAUCA
...........((((((....(((....))).............((((((.(((((...))))).))).)))...))))))(((((.((((((((.....)))))))))))))....... ( -26.70)
>DroSim_CAF1 17220 120 - 1
CCUACAAUUUUAAUCAACUUGGCCACGCGGCAAAUAAAACUUAGCGAUUGGUUAAUUAAAUUAGGCAGUUCGAUAUUGAUUGCAUUUGCAAAUGUAAUUAACAUUUGCGGUGCUUUAUCG
...........((((((....(((....))).............((((((.(((((...))))).))).)))...))))))(((((.((((((((.....)))))))))))))....... ( -26.70)
>DroEre_CAF1 17355 120 - 1
CCCACAAUUUUAAUCAACUUGACCAGGCCGCAAAUAAACCUUAGCGAUUGGUUAAUUAAAUUAGGCAGUUCGAUACUGAUUGCAUUUGCAAAAGUAAUUAACAUUUGGGGUGCUUUAUCA
((((....((((((....((((((((..(((............))).))))))))....))))))..(((.(.((((..((((....)))).)))).).)))...))))........... ( -24.40)
>DroYak_CAF1 18571 120 - 1
CCUACCAUUUUAAUCAACUUGACCACGCCGCAAAUAAAACUUAGCGAUUGGUUAAUUCAAUUAGGCUGUUCGAUAUUGAUUGCAUUUGCAAAAGUAAUUAACAUUUGCGGUGCUUCAUCA
...................(((...((((((((((......((((((((((.....))))))..)))).....((((..((((....)))).))))......))))))))))..)))... ( -25.60)
>consensus
CCUACAAUUUUAAUCAACUUGGCCACGCGGCAAAUAAAACUUAGCGAUUGGUUAAUUAAAUUAGGCAGUUCGAUAUUGAUUGCAUUUGCAAAUGUAAUUAACAUUUGCGGUGCUUUAUCA
........((((((....((((((((((...............)))..)))))))....))))))...........((((.(((((.((((((((.....)))))))))))))...)))) (-21.06 = -21.46 +   0.40)

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 11:57:20 2006