Locus 6303

Sequence ID X_DroMel_CAF1
Location 15,968,287 – 15,968,460
Length 173
Max. P 0.873900
window10272 window10273 window10274 window10275 window10276

overview

Window 2

Location 15,968,287 – 15,968,395
Length 108
Sequences 3
Columns 119
Reading direction forward
Mean pairwise identity 90.20
Mean single sequence MFE -41.47
Consensus MFE -30.90
Energy contribution -32.23
Covariance contribution 1.33
Combinations/Pair 1.00
Mean z-score -3.34
Structure conservation index 0.75
SVM decision value 0.82
SVM RNA-class probability 0.858834
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15968287 108 + 22224390
UAUAGAUUUGCAUAUAAAGAUGGCU-----------AGAAGGAAAUAUCCGGGCUAGGAGUGAUUGGCUCCUGCCCAAGCGAAUGGCAGCUGAAAGGUUUCCUAGCGAGCAGCUGCUGA
.....((((((..............-----------....(((....)))((((.((((((.....))))))))))..))))))((((((((....(((....)))...)))))))).. ( -40.10)
>DroSec_CAF1 36329 119 + 1
UAUAGAUUUGCAUAUUAAGAUGGCUGGAUGUGACCAAGAAGGAAAUAUCCGGGCUAGGAGUGAUUGGCUCCAGCCCAAGCGAAUGACAGCUGAAAGGUUUCCUAGGGAGCAGCUGCUGA
.....((((((..............((((((..((.....))..))))))(((((.(((((.....))))))))))..))))))..((((.(....(((((....)))))..).)))). ( -43.60)
>DroSim_CAF1 27390 119 + 1
UAUAGAUUUGCAUAUUAAGAUGGCUGGAUGUGGCCAAGAAUGAAAUAUCCGGGCUAGGAGUGAUUGGCUCCUUCCCAAGCGAAUGGCAGCUGAAAGGUUUCCUAGGGAGCAGCUGCUGA
.....((((((.........(((((......)))))..............(((..((((((.....)))))).)))..))))))(((((((.....(((((....)))))))))))).. ( -40.70)
>consensus
UAUAGAUUUGCAUAUUAAGAUGGCUGGAUGUG_CCAAGAAGGAAAUAUCCGGGCUAGGAGUGAUUGGCUCCUGCCCAAGCGAAUGGCAGCUGAAAGGUUUCCUAGGGAGCAGCUGCUGA
.....((((((.............................(((....)))((((.((((((.....))))))))))..))))))((((((((..(((...)))......)))))))).. (-30.90 = -32.23 +   1.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 15,968,287 – 15,968,395
Length 108
Sequences 3
Columns 119
Reading direction reverse
Mean pairwise identity 90.20
Mean single sequence MFE -31.83
Consensus MFE -25.25
Energy contribution -26.03
Covariance contribution 0.78
Combinations/Pair 1.05
Mean z-score -2.93
Structure conservation index 0.79
SVM decision value 0.88
SVM RNA-class probability 0.873900
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15968287 108 - 22224390
UCAGCAGCUGCUCGCUAGGAAACCUUUCAGCUGCCAUUCGCUUGGGCAGGAGCCAAUCACUCCUAGCCCGGAUAUUUCCUUCU-----------AGCCAUCUUUAUAUGCAAAUCUAUA
...(((((((.......(....)....))))))).....((..(((((((((.......))))).))))(((....)))....-----------..............))......... ( -31.70)
>DroSec_CAF1 36329 119 - 1
UCAGCAGCUGCUCCCUAGGAAACCUUUCAGCUGUCAUUCGCUUGGGCUGGAGCCAAUCACUCCUAGCCCGGAUAUUUCCUUCUUGGUCACAUCCAGCCAUCUUAAUAUGCAAAUCUAUA
...(((((((.......(....)....))))))).....((..(((((((((.......)))).)))))((((....((.....))....))))..............))......... ( -33.20)
>DroSim_CAF1 27390 119 - 1
UCAGCAGCUGCUCCCUAGGAAACCUUUCAGCUGCCAUUCGCUUGGGAAGGAGCCAAUCACUCCUAGCCCGGAUAUUUCAUUCUUGGCCACAUCCAGCCAUCUUAAUAUGCAAAUCUAUA
...(((((((.......(....)....))))))).....(((((((.(((((.......)))))..)))))(((((.......((((........))))....)))))))......... ( -30.60)
>consensus
UCAGCAGCUGCUCCCUAGGAAACCUUUCAGCUGCCAUUCGCUUGGGCAGGAGCCAAUCACUCCUAGCCCGGAUAUUUCCUUCUUGG_CACAUCCAGCCAUCUUAAUAUGCAAAUCUAUA
...(((((((.......(....)....))))))).....((..(((((((((.......))))).))))(((....))).............................))......... (-25.25 = -26.03 +   0.78)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 15,968,315 – 15,968,421
Length 106
Sequences 3
Columns 116
Reading direction forward
Mean pairwise identity 88.22
Mean single sequence MFE -40.80
Consensus MFE -31.52
Energy contribution -33.30
Covariance contribution 1.78
Combinations/Pair 1.03
Mean z-score -2.74
Structure conservation index 0.77
SVM decision value 0.81
SVM RNA-class probability 0.856089
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15968315 106 + 22224390
AGGAAAUAUCCGGGCUAGGAGUGAUUGGCUCCUGCCCAAGCGAAUGGCAGCUGAAAGGUUUCCUAGCGAGCAGCUGCUGAUCGAGAAUGGAUGCACCUUGAGUU----------GA
(((...(((((((((.((((((.....))))))))))...(((.(((((((((....(((....)))...))))))))).))).....)))))..)))......----------.. ( -42.40)
>DroSec_CAF1 36368 116 + 1
AGGAAAUAUCCGGGCUAGGAGUGAUUGGCUCCAGCCCAAGCGAAUGACAGCUGAAAGGUUUCCUAGGGAGCAGCUGCUGAACGAGGAUGGAUGCACCUUGAGCUUGUAGAAUGAAA
.(((....)))(((((.(((((.....))))))))))((((......((((.(....(((((....)))))..).))))..(((((.((....))))))).))))........... ( -41.10)
>DroSim_CAF1 27429 116 + 1
AUGAAAUAUCCGGGCUAGGAGUGAUUGGCUCCUUCCCAAGCGAAUGGCAGCUGAAAGGUUUCCUAGGGAGCAGCUGCUGAACGAGGAUGUAUGCACCUUGAGCUUGCAGAAUGAAA
...........(((..((((((.....)))))).)))((((....(((((((.....(((((....))))))))))))...(((((.((....))))))).))))........... ( -38.90)
>consensus
AGGAAAUAUCCGGGCUAGGAGUGAUUGGCUCCUGCCCAAGCGAAUGGCAGCUGAAAGGUUUCCUAGGGAGCAGCUGCUGAACGAGGAUGGAUGCACCUUGAGCUUG_AGAAUGAAA
.(((....)))((((.((((((.....))))))))))((((....((((((((..(((...)))......))))))))...(((((.((....))))))).))))........... (-31.52 = -33.30 +   1.78)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 15,968,315 – 15,968,421
Length 106
Sequences 3
Columns 116
Reading direction reverse
Mean pairwise identity 88.22
Mean single sequence MFE -32.77
Consensus MFE -26.31
Energy contribution -26.53
Covariance contribution 0.23
Combinations/Pair 1.09
Mean z-score -2.46
Structure conservation index 0.80
SVM decision value 0.70
SVM RNA-class probability 0.826418
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15968315 106 - 22224390
UC----------AACUCAAGGUGCAUCCAUUCUCGAUCAGCAGCUGCUCGCUAGGAAACCUUUCAGCUGCCAUUCGCUUGGGCAGGAGCCAAUCACUCCUAGCCCGGAUAUUUCCU
..----------......(((...((((.....(((...(((((((.......(....)....)))))))...)))...(((((((((.......))))).))))))))....))) ( -36.00)
>DroSec_CAF1 36368 116 - 1
UUUCAUUCUACAAGCUCAAGGUGCAUCCAUCCUCGUUCAGCAGCUGCUCCCUAGGAAACCUUUCAGCUGUCAUUCGCUUGGGCUGGAGCCAAUCACUCCUAGCCCGGAUAUUUCCU
...........((((....((.....))...........(((((((.......(....)....))))))).....))))(((((((((.......)))).)))))(((....))). ( -32.60)
>DroSim_CAF1 27429 116 - 1
UUUCAUUCUGCAAGCUCAAGGUGCAUACAUCCUCGUUCAGCAGCUGCUCCCUAGGAAACCUUUCAGCUGCCAUUCGCUUGGGAAGGAGCCAAUCACUCCUAGCCCGGAUAUUUCAU
........((((..(....).))))...((((.((....(((((((.......(....)....)))))))....))...(((.(((((.......)))))..)))))))....... ( -29.70)
>consensus
UUUCAUUCU_CAAGCUCAAGGUGCAUCCAUCCUCGUUCAGCAGCUGCUCCCUAGGAAACCUUUCAGCUGCCAUUCGCUUGGGCAGGAGCCAAUCACUCCUAGCCCGGAUAUUUCCU
............................((((.((....(((((((.......(....)....)))))))....))...(((((((((.......))))).))))))))....... (-26.31 = -26.53 +   0.23)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 15,968,355 – 15,968,460
Length 105
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 84.10
Mean single sequence MFE -26.50
Consensus MFE -17.36
Energy contribution -17.44
Covariance contribution 0.08
Combinations/Pair 1.20
Mean z-score -1.68
Structure conservation index 0.66
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15968355 105 - 22224390
CACGAUCUUUAGUCCGAUAA-AAGAGCUUUCCUCUCUAUCUC----------AACU----CAAGGUGCAUCCAUUCUCGAUCAGCAGCUGCUCGCUAGGAAACCUUUCAGCUGCCAUUCG
....(((((.(((..((((.-.((((.....)))).))))..----------.)))----.)))))...........(((...(((((((.......(....)....)))))))...))) ( -22.60)
>DroSec_CAF1 36408 115 - 1
CACGAUCUUGAGUCCGAUAA-AAGAGCUUUCCUCUCUAUCUUUCAUUCUACAAGCU----CAAGGUGCAUCCAUCCUCGUUCAGCAGCUGCUCCCUAGGAAACCUUUCAGCUGUCAUUCG
....(((((((((..((((.-.((((.....)))).)))).............)))----))))))...........((....(((((((.......(....)....)))))))....)) ( -21.86)
>DroSim_CAF1 27469 115 - 1
CACGAUCUUCAGUCCGAUAA-AAGAGCUUUCCUCUCUAUCUUUCAUUCUGCAAGCU----CAAGGUGCAUACAUCCUCGUUCAGCAGCUGCUCCCUAGGAAACCUUUCAGCUGCCAUUCG
..(((......(..(((...-..((((((......................)))))----)..((((....)))).)))..).(((((((.......(....)....)))))))...))) ( -22.95)
>DroEre_CAF1 35295 115 - 1
CACGAUCUUGAGUUCGAUAA-AAGAGCUUUCCGCUCUAACUUUUAUUCCACUAGCU----GAAGAUGCAUCCAACCUUGGUCAGCAGCUGCUCCCUAGGAAACCUUUCAGCUGCCAUUCG
...((((..(.(((.(((..-.(((((.....)))))................((.----......))))).))))..)))).(((((((.......(....)....)))))))...... ( -28.20)
>DroYak_CAF1 19197 116 - 1
CACGAUCUUGAGUCCGAUAAAAAGAGCUUUUCGCUCUAUCUUUUAUUCUACGGGCAUCUACGGGAUGCAUCCAUCCUCGAUCAGCAGCUGCCCCCUAGGAAACCUUUCAGCUGCCA----
...((((....((((((((((((((((.....)))))...))))))....)))))......((((((....)))))).)))).(((((((.......(....)....)))))))..---- ( -36.90)
>consensus
CACGAUCUUGAGUCCGAUAA_AAGAGCUUUCCUCUCUAUCUUUCAUUCUACAAGCU____CAAGGUGCAUCCAUCCUCGAUCAGCAGCUGCUCCCUAGGAAACCUUUCAGCUGCCAUUCG
...((((...............((((.......))))..........................((((....))))...)))).(((((((.......(....)....)))))))...... (-17.36 = -17.44 +   0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:10:07 2006