Locus 4594

Sequence ID 2R_DroMel_CAF1
Location 14,977,066 – 14,977,336
Length 270
Max. P 0.993164
window7380 window7381 window7382 window7383 window7384 window7385

overview

Window 0

Location 14,977,066 – 14,977,185
Length 119
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 93.31
Mean single sequence MFE -20.16
Consensus MFE -16.49
Energy contribution -16.30
Covariance contribution -0.19
Combinations/Pair 1.05
Mean z-score -1.82
Structure conservation index 0.82
SVM decision value 0.36
SVM RNA-class probability 0.702806
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14977066 119 - 20766785
CGACACACCCUAUGAAAAUCGUAUGCAAUCUGCAGGUAAGUGCAGGUGAUUCAUACACCCACACAUGCACACUUACUCA-AAAAAACUGGUAGAAACCACACAUAUUUCUCGAAAAACAU
(((...(((.((((.....))))(((.....))))))..(((((.(((...........)))...))))).........-.......((((....))))..........)))........ ( -18.80)
>DroSim_CAF1 7608 120 - 1
CGACACACCCUAUUAAAAUCGUAUGCAAUCUGCAGGUAAGUGCAGGUGAUUCAUACCCCAUCACACGCACACUUACUCAGAAAAAACUGGUAGAAACCACACAUAUUUCUCGCCAAACAU
....................((......((((..((((((((..((((((.........))))).)...))))))))))))......(((((((((.........))))).)))).)).. ( -22.20)
>DroEre_CAF1 7399 119 - 1
CGACACACCCAAUAAAAAUCGUGUGCAAUCUGCAGGUAAGUGCAGGUGAUUCAUACCCACACACACAUACACUUACUCA-AAAAAACUGGUAGAAACCACACAUAUUUCUCGCCAAACAU
....................(((((...(((((.((((((((...(((...............)))...))))))))((-.......)))))))...))))).................. ( -21.46)
>DroYak_CAF1 7072 118 - 1
CGACACACCCAAUAAAAAUCGUAUGCAAUCUGCAGGUAAGUGCAGGUGAUUCAUACCCACACACACAUACACUUACUCA-AA-AAACUGGUAGAAACCACACAUAUUUCUCGCCAAACAU
.......................(((.....)))((((((((...(((...............)))...))))))))..-..-....(((((((((.........))))).))))..... ( -18.16)
>consensus
CGACACACCCAAUAAAAAUCGUAUGCAAUCUGCAGGUAAGUGCAGGUGAUUCAUACCCACACACACACACACUUACUCA_AAAAAACUGGUAGAAACCACACAUAUUUCUCGCCAAACAU
(((.................(((((..(((((((......)))))))....)))))...............................((((....))))..........)))........ (-16.49 = -16.30 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 14,977,145 – 14,977,241
Length 96
Sequences 3
Columns 110
Reading direction forward
Mean pairwise identity 85.13
Mean single sequence MFE -31.80
Consensus MFE -24.15
Energy contribution -24.48
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -2.85
Structure conservation index 0.76
SVM decision value 1.31
SVM RNA-class probability 0.940289
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14977145 96 + 20766785
CUUACCUGCAGAUUGCAUACGAUUUUCAUAGGGUGUGUCGUUGUUGUCUUGGAGUAGCUACAGCAA-------------CA-ACAACAACAACGACCUUCCCAGACGCAG
.....((((((((((....)))))).....(((...(((((((((((..((..((.((....)).)-------------).-.)))))))))))))...)))....)))) ( -32.40)
>DroSim_CAF1 7688 96 + 1
CUUACCUGCAGAUUGCAUACGAUUUUAAUAGGGUGUGUCGUUGUUGUCUUGGAGUAGCUACAGCAA-------------CA-ACAACAACAACGACCUUCCCAGACGCAG
.....((((((((((....)))))).....(((...(((((((((((..((..((.((....)).)-------------).-.)))))))))))))...)))....)))) ( -32.40)
>DroEre_CAF1 7478 105 + 1
CUUACCUGCAGAUUGCACACGAUUUUUAUUGGGUGUGUCGUUGCUGUCUUGGAGUAGCUACA----GCAGAAGCAACAACAC-CAACAACAACGACCUUCCCAGACGCAG
.....((((((((((....))))))...(((((...(((((((.(((..((..((.(((...----.....))).))..)).-..))).)))))))...)))))..)))) ( -30.60)
>consensus
CUUACCUGCAGAUUGCAUACGAUUUUAAUAGGGUGUGUCGUUGUUGUCUUGGAGUAGCUACAGCAA_____________CA_ACAACAACAACGACCUUCCCAGACGCAG
.....((((((((((....)))))).....(((...(((((((((((..((................................)))))))))))))...)))....)))) (-24.15 = -24.48 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 14,977,145 – 14,977,241
Length 96
Sequences 3
Columns 110
Reading direction reverse
Mean pairwise identity 85.13
Mean single sequence MFE -33.97
Consensus MFE -25.71
Energy contribution -25.49
Covariance contribution -0.22
Combinations/Pair 1.05
Mean z-score -2.68
Structure conservation index 0.76
SVM decision value 1.12
SVM RNA-class probability 0.918919
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14977145 96 - 20766785
CUGCGUCUGGGAAGGUCGUUGUUGUUGU-UG-------------UUGCUGUAGCUACUCCAAGACAACAACGACACACCCUAUGAAAAUCGUAUGCAAUCUGCAGGUAAG
((((....(((...((((((((((((..-.(-------------(.((....)).)).....))))))))))))...)))((((.....))))........))))..... ( -33.00)
>DroSim_CAF1 7688 96 - 1
CUGCGUCUGGGAAGGUCGUUGUUGUUGU-UG-------------UUGCUGUAGCUACUCCAAGACAACAACGACACACCCUAUUAAAAUCGUAUGCAAUCUGCAGGUAAG
((((....(((...((((((((((((..-.(-------------(.((....)).)).....))))))))))))...)))..........(....).....))))..... ( -30.80)
>DroEre_CAF1 7478 105 - 1
CUGCGUCUGGGAAGGUCGUUGUUGUUG-GUGUUGUUGCUUCUGC----UGUAGCUACUCCAAGACAGCAACGACACACCCAAUAAAAAUCGUGUGCAAUCUGCAGGUAAG
((((...((((...(((((((((((((-(.((.(((((......----.))))).)).)))..)))))))))))...)))).........(....).....))))..... ( -38.10)
>consensus
CUGCGUCUGGGAAGGUCGUUGUUGUUGU_UG_____________UUGCUGUAGCUACUCCAAGACAACAACGACACACCCUAUAAAAAUCGUAUGCAAUCUGCAGGUAAG
((((....(((...((((((((((((....................................))))))))))))...)))..........(....).....))))..... (-25.71 = -25.49 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 14,977,211 – 14,977,315
Length 104
Sequences 4
Columns 106
Reading direction forward
Mean pairwise identity 97.62
Mean single sequence MFE -21.89
Consensus MFE -20.84
Energy contribution -20.85
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.67
Structure conservation index 0.95
SVM decision value 0.21
SVM RNA-class probability 0.633856
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14977211 104 + 20766785
-CA-ACAACAACAACGACCUUCCCAGACGCAGAACUUUGGCAAAAAUGCCAAGCUCGCUCGCUCGCUCGCCACAUCCACAGAAUUACAAUCCACAGUGGCGGCAGC
-..-.....................((.((.((.(((.((((....))))))).))))))(((.((.((((((......................))))))))))) ( -25.25)
>DroSec_CAF1 11 104 + 1
-CA-ACAACAACAACGACCUUCCCAGACGCAGAACUUUGGCAAAAAUGCCAAGCUCGCUCGCUCGCUCGCCACAUCCACAGAAUUACAAUCCACAUCGGCGGCAGC
-..-.....................((.((.((.(((.((((....))))))).))))))(((.((.((((..........................))))))))) ( -20.77)
>DroSim_CAF1 7754 104 + 1
-CA-ACAACAACAACGACCUUCCCAGACGCAGAACUUUGGCAAAAAUGCCAAGCUCGCUCGCUCGCUCGCCACAUCCACAGAAUUACAAUCCACAUCGGCGGCAGC
-..-.....................((.((.((.(((.((((....))))))).))))))(((.((.((((..........................))))))))) ( -20.77)
>DroEre_CAF1 7552 105 + 1
ACAC-CAACAACAACGACCUUCCCAGACGCAGAACUUUGGCAAAAAUGCCAAGCUCGCUCGCUCGCUCGCCACAUCCACAGAAUUACAAUCCACAUCGGCGGCAGC
....-....................((.((.((.(((.((((....))))))).))))))(((.((.((((..........................))))))))) ( -20.77)
>consensus
_CA_ACAACAACAACGACCUUCCCAGACGCAGAACUUUGGCAAAAAUGCCAAGCUCGCUCGCUCGCUCGCCACAUCCACAGAAUUACAAUCCACAUCGGCGGCAGC
.........................((.((.((.(((.((((....))))))).))))))(((.((.((((..........................))))))))) (-20.84 = -20.85 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 14,977,241 – 14,977,336
Length 95
Sequences 5
Columns 95
Reading direction forward
Mean pairwise identity 99.16
Mean single sequence MFE -24.67
Consensus MFE -23.83
Energy contribution -23.83
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -2.00
Structure conservation index 0.97
SVM decision value 2.38
SVM RNA-class probability 0.993164
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14977241 95 + 20766785
AACUUUGGCAAAAAUGCCAAGCUCGCUCGCUCGCUCGCCACAUCCACAGAAUUACAAUCCACAGUGGCGGCAGCCACAAUGGCAAAAGUAGCCAG
...(((((((....)))))))((.(((.(((.((.((((((......................)))))))).(((.....)))...)))))).)) ( -28.25)
>DroSec_CAF1 41 95 + 1
AACUUUGGCAAAAAUGCCAAGCUCGCUCGCUCGCUCGCCACAUCCACAGAAUUACAAUCCACAUCGGCGGCAGCCACAAUGGCAAAAGUAGCCAG
...(((((((....)))))))((.(((.(((.((.((((..........................)))))).(((.....)))...)))))).)) ( -23.77)
>DroSim_CAF1 7784 95 + 1
AACUUUGGCAAAAAUGCCAAGCUCGCUCGCUCGCUCGCCACAUCCACAGAAUUACAAUCCACAUCGGCGGCAGCCACAAUGGCAAAAGUAGCCAG
...(((((((....)))))))((.(((.(((.((.((((..........................)))))).(((.....)))...)))))).)) ( -23.77)
>DroEre_CAF1 7583 95 + 1
AACUUUGGCAAAAAUGCCAAGCUCGCUCGCUCGCUCGCCACAUCCACAGAAUUACAAUCCACAUCGGCGGCAGCCACAAUGGCAAAAGUAGCCAG
...(((((((....)))))))((.(((.(((.((.((((..........................)))))).(((.....)))...)))))).)) ( -23.77)
>DroYak_CAF1 7270 95 + 1
AACUUUGGCAAAAAUGCCAAGCUCGCUCGCUCGCUCGCCACAUCCACAGAAUUACAAUCCACAUCGGCGGCAGCCACAAUGGCAAAAGUAGCCAG
...(((((((....)))))))((.(((.(((.((.((((..........................)))))).(((.....)))...)))))).)) ( -23.77)
>consensus
AACUUUGGCAAAAAUGCCAAGCUCGCUCGCUCGCUCGCCACAUCCACAGAAUUACAAUCCACAUCGGCGGCAGCCACAAUGGCAAAAGUAGCCAG
...(((((((....)))))))((.(((.(((.((.((((..........................)))))).(((.....)))...)))))).)) (-23.83 = -23.83 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 14,977,241 – 14,977,336
Length 95
Sequences 5
Columns 95
Reading direction reverse
Mean pairwise identity 99.16
Mean single sequence MFE -32.88
Consensus MFE -32.26
Energy contribution -32.10
Covariance contribution -0.16
Combinations/Pair 1.03
Mean z-score -1.43
Structure conservation index 0.98
SVM decision value 0.82
SVM RNA-class probability 0.859737
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14977241 95 - 20766785
CUGGCUACUUUUGCCAUUGUGGCUGCCGCCACUGUGGAUUGUAAUUCUGUGGAUGUGGCGAGCGAGCGAGCGAGCUUGGCAUUUUUGCCAAAGUU
.((((.......))))((((.(((((((((((.(..((.......))..)....)))))).)).)))..))))((((((((....)))).)))). ( -34.80)
>DroSec_CAF1 41 95 - 1
CUGGCUACUUUUGCCAUUGUGGCUGCCGCCGAUGUGGAUUGUAAUUCUGUGGAUGUGGCGAGCGAGCGAGCGAGCUUGGCAUUUUUGCCAAAGUU
.((((.......))))((((.((((((((((.((..((.......))..))....))))).)).)))..))))((((((((....)))).)))). ( -32.40)
>DroSim_CAF1 7784 95 - 1
CUGGCUACUUUUGCCAUUGUGGCUGCCGCCGAUGUGGAUUGUAAUUCUGUGGAUGUGGCGAGCGAGCGAGCGAGCUUGGCAUUUUUGCCAAAGUU
.((((.......))))((((.((((((((((.((..((.......))..))....))))).)).)))..))))((((((((....)))).)))). ( -32.40)
>DroEre_CAF1 7583 95 - 1
CUGGCUACUUUUGCCAUUGUGGCUGCCGCCGAUGUGGAUUGUAAUUCUGUGGAUGUGGCGAGCGAGCGAGCGAGCUUGGCAUUUUUGCCAAAGUU
.((((.......))))((((.((((((((((.((..((.......))..))....))))).)).)))..))))((((((((....)))).)))). ( -32.40)
>DroYak_CAF1 7270 95 - 1
CUGGCUACUUUUGCCAUUGUGGCUGCCGCCGAUGUGGAUUGUAAUUCUGUGGAUGUGGCGAGCGAGCGAGCGAGCUUGGCAUUUUUGCCAAAGUU
.((((.......))))((((.((((((((((.((..((.......))..))....))))).)).)))..))))((((((((....)))).)))). ( -32.40)
>consensus
CUGGCUACUUUUGCCAUUGUGGCUGCCGCCGAUGUGGAUUGUAAUUCUGUGGAUGUGGCGAGCGAGCGAGCGAGCUUGGCAUUUUUGCCAAAGUU
.((((.......))))((((.((((((((((.((..((.......))..))....))))).)).)))..))))((((((((....)))).)))). (-32.26 = -32.10 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:24:17 2006