Locus 6719

Sequence ID 3R_DroMel_CAF1
Location 17,677,230 – 17,677,327
Length 97
Max. P 0.616609
window10914 window10915

overview

Window 4

Location 17,677,230 – 17,677,327
Length 97
Sequences 6
Columns 98
Reading direction forward
Mean pairwise identity 82.47
Mean single sequence MFE -20.97
Consensus MFE -14.41
Energy contribution -15.25
Covariance contribution 0.84
Combinations/Pair 1.17
Mean z-score -1.73
Structure conservation index 0.69
SVM decision value 0.17
SVM RNA-class probability 0.616609
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17677230 97 + 27905053
-GUUAUGCAACAACAUUUUUGGACCGUCAAGUCUUGGUUUAAAACAAACGUACAAUCCAUACACAAAAGUAUCUGUGUAUGGCGGGGGUACAAAAAAA
-...............((((((((((........)))))))))).....((((...(((((((((........))))))))).....))))....... ( -24.90)
>DroPse_CAF1 66834 84 + 1
-UUUGUUGGACAACAUU-UGGGAUCGUCAAGUCUUUGUUUAAA-CAAU-------UAUAUACAUAAAAGC-UUUAUGCAUA-CGUAAGUAAAAA--AA
-.(((((((((((.(((-(((.....))))))..)))))).))-))).-------.............((-.....)).((-(....)))....--.. ( -12.50)
>DroSec_CAF1 71256 97 + 1
-GUUAUGCAACAACAUUUUGGGACCGUUAAGUCUUGGUUUAAAACAAACGUACAAUCCAUACACAAUACUCUCUGUGUAUGGCUGGGGUACAAAAAAA
-................(..((((......))))..)............((((...(((((((((........))))))))).....))))....... ( -22.30)
>DroSim_CAF1 75162 97 + 1
-GUUAUGCAACAACAUUUUGGGACCGUCAAGUCUUGGUUUAAAACAAACGUACAAUCCAUACACAAUACUCUCUGUGUAUGGCUGGGGUACAAAAAAA
-................(..((((......))))..)............((((...(((((((((........))))))))).....))))....... ( -22.30)
>DroEre_CAF1 71631 97 + 1
-UUUAUGCAACAACAUUUUGGGACCGUCAAGUCUUGGUUUAAAACAAACUUACAAUCCAUACACAAGGGUAUCUGUGUAUGGCGGGGGUACAAAAAAA
-..............(((((..(((.((((((.(((........))))))).....(((((((((........))))))))).)).))).)))))... ( -24.00)
>DroYak_CAF1 81111 94 + 1
UUUUAUGCAACAACAUUUUGGGA----CAAGUCUUGGUUUAAAACAAACGUACGAUCCAUACACAAAUGCAUCUGUGUAUGGCGGGGGUACAAAAAAA
((((.(((..(......(..(((----....)))..)...............((..(((((((((........))))))))))))..))).))))... ( -19.80)
>consensus
_GUUAUGCAACAACAUUUUGGGACCGUCAAGUCUUGGUUUAAAACAAACGUACAAUCCAUACACAAAAGUAUCUGUGUAUGGCGGGGGUACAAAAAAA
.................(..((((......))))..)............((((...(((((((((........))))))))).....))))....... (-14.41 = -15.25 +   0.84)

alignment

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secondary structure

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dotplot

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Window 5

Location 17,677,230 – 17,677,327
Length 97
Sequences 6
Columns 98
Reading direction reverse
Mean pairwise identity 82.47
Mean single sequence MFE -20.60
Consensus MFE -13.65
Energy contribution -14.15
Covariance contribution 0.50
Combinations/Pair 1.24
Mean z-score -1.58
Structure conservation index 0.66
SVM decision value -0.04
SVM RNA-class probability 0.515610
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17677230 97 - 27905053
UUUUUUUGUACCCCCGCCAUACACAGAUACUUUUGUGUAUGGAUUGUACGUUUGUUUUAAACCAAGACUUGACGGUCCAAAAAUGUUGUUGCAUAAC-
...(((((.(((....(((((((((((....))))))))))).......(((.(((((.....)))))..)))))).)))))((((....))))...- ( -25.90)
>DroPse_CAF1 66834 84 - 1
UU--UUUUUACUUACG-UAUGCAUAAA-GCUUUUAUGUAUAUA-------AUUG-UUUAAACAAAGACUUGACGAUCCCA-AAUGUUGUCCAACAAA-
..--...........(-(((((((((.-....)))))))))).-------.(((-(....))))......((((((....-...)))))).......- ( -12.00)
>DroSec_CAF1 71256 97 - 1
UUUUUUUGUACCCCAGCCAUACACAGAGAGUAUUGUGUAUGGAUUGUACGUUUGUUUUAAACCAAGACUUAACGGUCCCAAAAUGUUGUUGCAUAAC-
....((((.(((.(((((((((((((......)))))))))).)))...(((.(((((.....)))))..))))))..))))((((....))))...- ( -21.30)
>DroSim_CAF1 75162 97 - 1
UUUUUUUGUACCCCAGCCAUACACAGAGAGUAUUGUGUAUGGAUUGUACGUUUGUUUUAAACCAAGACUUGACGGUCCCAAAAUGUUGUUGCAUAAC-
....((((.(((.(((((((((((((......)))))))))).)))...(((.(((((.....)))))..))))))..))))((((....))))...- ( -21.70)
>DroEre_CAF1 71631 97 - 1
UUUUUUUGUACCCCCGCCAUACACAGAUACCCUUGUGUAUGGAUUGUAAGUUUGUUUUAAACCAAGACUUGACGGUCCCAAAAUGUUGUUGCAUAAA-
....((((.(((....((((((((((......))))))))))....(((((((...........)))))))..)))..))))((((....))))...- ( -21.60)
>DroYak_CAF1 81111 94 - 1
UUUUUUUGUACCCCCGCCAUACACAGAUGCAUUUGUGUAUGGAUCGUACGUUUGUUUUAAACCAAGACUUG----UCCCAAAAUGUUGUUGCAUAAAA
.......((((.....(((((((((((....)))))))))))...))))....(((((.....))))).((----(..(((....)))..)))..... ( -21.10)
>consensus
UUUUUUUGUACCCCCGCCAUACACAGAUACUUUUGUGUAUGGAUUGUACGUUUGUUUUAAACCAAGACUUGACGGUCCCAAAAUGUUGUUGCAUAAA_
.......((((.....((((((((((......))))))))))...))))................(((......)))..................... (-13.65 = -14.15 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:28:17 2006