Locus 2051

Sequence ID 2R_DroMel_CAF1
Location 7,721,926 – 7,722,086
Length 160
Max. P 0.941110
window3398 window3399 window3400

overview

Window 8

Location 7,721,926 – 7,722,046
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 83.28
Mean single sequence MFE -29.32
Consensus MFE -19.12
Energy contribution -19.92
Covariance contribution 0.80
Combinations/Pair 1.15
Mean z-score -2.55
Structure conservation index 0.65
SVM decision value 1.25
SVM RNA-class probability 0.935536
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7721926 120 + 20766785
UGACAAUGAAAUGCACUUAUUUAUACCAUUUUUAAUUCGCCAAGGUUACACUGAUGCGAAUAGUGUGACCUUGCUGGCUAAAAGCAGGUUAAACGAAGCAGCACCGCAUUAAAGACUUAU
....((((...(((.(((......(((..........((.(((((((((((((.......))))))))))))).))((.....)).)))......)))..)))...)))).......... ( -29.20)
>DroSec_CAF1 8250 114 + 1
-UACAAUGGCAUGCACUUAUUUAUACCUUUUUUAAUUUGCCAAGGUUACACUGAUGAGAAUAGUGUGACCUUGCUGGCGAAAAGCAGGCACAACGAA-----ACCGCAAUAAAGAUUUAU
-.....((((.(((......(((.........)))((((((((((((((((((.......)))))))))))...)))))))..))).)).)).....-----.................. ( -26.70)
>DroSim_CAF1 9814 114 + 1
-UGCAAUGGCAUGCAUUUAUUUAUACCUUUUUUAAUUCGCCAAGGUUACACUGAUGCGAAUAGUGUGACCUUGCUGGCGAAAAGCAGGCAAAACGAA-----ACCGCAUUAAAGAUUUAU
-((((......)))).............(((((((((((((((((((((((((.......)))))))))))...)))))))..((.((.........-----.)))).)))))))..... ( -30.70)
>DroEre_CAF1 5751 115 + 1
UGACAACGAAAUGCACUUAUUUAUACCUCAUUUAGUUCGCCAAGGUUACACUACUUCGAAUAGAGUGACCUUGCUAGCUAAAAGAAGGUAAAACGAAGCAG-----CAUUAAAGAUUUAU
.........(((((.(((.....((((((.(((((((.((.((((((((.(((.......))).)))))))))).))))))).).))))).....)))..)-----)))).......... ( -31.60)
>DroYak_CAF1 5637 117 + 1
---CAACGAAAUGCACAUAUUUAUACCUUAUUUUAUUUGUCUAGGUUACACUAAUGCGACUAGUGUGACCUUGCUAACUAAAAGAAGGUAAAACGAAGCAGCACCGCAUUAAAGAUUUAU
---......(((((.........((((((.(((((.(((.(.(((((((((((.......))))))))))).).))).))))).))))))....(......)...))))).......... ( -28.40)
>consensus
_GACAAUGAAAUGCACUUAUUUAUACCUUUUUUAAUUCGCCAAGGUUACACUGAUGCGAAUAGUGUGACCUUGCUGGCUAAAAGCAGGUAAAACGAAGCAG_ACCGCAUUAAAGAUUUAU
.......................((((((((((..((.(.(((((((((((((.......)))))))))))))).))..))))).))))).............................. (-19.12 = -19.92 +   0.80)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 7,721,926 – 7,722,046
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 83.28
Mean single sequence MFE -30.18
Consensus MFE -15.93
Energy contribution -15.89
Covariance contribution -0.04
Combinations/Pair 1.14
Mean z-score -2.47
Structure conservation index 0.53
SVM decision value 0.38
SVM RNA-class probability 0.713718
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7721926 120 - 20766785
AUAAGUCUUUAAUGCGGUGCUGCUUCGUUUAACCUGCUUUUAGCCAGCAAGGUCACACUAUUCGCAUCAGUGUAACCUUGGCGAAUUAAAAAUGGUAUAAAUAAGUGCAUUUCAUUGUCA
.........(((((..((((.((((.((((((((...((((((...(((((((.(((((.........))))).))))).))...))))))..))).)))))))))))))..)))))... ( -31.30)
>DroSec_CAF1 8250 114 - 1
AUAAAUCUUUAUUGCGGU-----UUCGUUGUGCCUGCUUUUCGCCAGCAAGGUCACACUAUUCUCAUCAGUGUAACCUUGGCAAAUUAAAAAAGGUAUAAAUAAGUGCAUGCCAUUGUA-
............((((.(-----(...((((((((..(((..((((...((((.(((((.........))))).)))))))).....)))..))))))))..)).))))..........- ( -28.30)
>DroSim_CAF1 9814 114 - 1
AUAAAUCUUUAAUGCGGU-----UUCGUUUUGCCUGCUUUUCGCCAGCAAGGUCACACUAUUCGCAUCAGUGUAACCUUGGCGAAUUAAAAAAGGUAUAAAUAAAUGCAUGCCAUUGCA-
...........(((((..-----....((.(((((....(((((((...((((.(((((.........))))).))))))))))).......))))).)).....)))))((....)).- ( -29.80)
>DroEre_CAF1 5751 115 - 1
AUAAAUCUUUAAUG-----CUGCUUCGUUUUACCUUCUUUUAGCUAGCAAGGUCACUCUAUUCGAAGUAGUGUAACCUUGGCGAACUAAAUGAGGUAUAAAUAAGUGCAUUUCGUUGUCA
..........((((-----(.((((.((((((((((..(((((...(((((((.((.((((.....)))).)).))))).))...))))).)))))).)))))))))))))......... ( -30.40)
>DroYak_CAF1 5637 117 - 1
AUAAAUCUUUAAUGCGGUGCUGCUUCGUUUUACCUUCUUUUAGUUAGCAAGGUCACACUAGUCGCAUUAGUGUAACCUAGACAAAUAAAAUAAGGUAUAAAUAUGUGCAUUUCGUUG---
.........(((((..((((.((....((.((((((.(((((.....(.((((.((((((((...)))))))).)))).).....))))).)))))).))....))))))..)))))--- ( -31.10)
>consensus
AUAAAUCUUUAAUGCGGU_CUGCUUCGUUUUACCUGCUUUUAGCCAGCAAGGUCACACUAUUCGCAUCAGUGUAACCUUGGCGAAUUAAAAAAGGUAUAAAUAAGUGCAUUUCAUUGUA_
.........(((((.............((.(((((..(((..((((...((((.(((((.........))))).)))))))).....)))..))))).))............)))))... (-15.93 = -15.89 +  -0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 7,721,966 – 7,722,086
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 79.72
Mean single sequence MFE -29.18
Consensus MFE -16.32
Energy contribution -16.64
Covariance contribution 0.32
Combinations/Pair 1.12
Mean z-score -2.39
Structure conservation index 0.56
SVM decision value 1.31
SVM RNA-class probability 0.941110
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7721966 120 + 20766785
CAAGGUUACACUGAUGCGAAUAGUGUGACCUUGCUGGCUAAAAGCAGGUUAAACGAAGCAGCACCGCAUUAAAGACUUAUUCAACACAUGGUUGACUUCUUGUAUUACUUACAGUAGCCA
(((((((((((((.......)))))))))))))..(((((...(.((((...((((.((......)).............(((((.....)))))....))))...)))).)..))))). ( -33.50)
>DroSec_CAF1 8289 115 + 1
CAAGGUUACACUGAUGAGAAUAGUGUGACCUUGCUGGCGAAAAGCAGGCACAACGAA-----ACCGCAAUAAAGAUUUAUACAUCACAUUGUUGACUUCUUGUAUUACUUACAGUAGUCA
.((((((((((((.......))))))))))))(((.((.....)).)))........-----...(((((...(((......)))..)))))(((((..(((((.....))))).))))) ( -29.60)
>DroSim_CAF1 9853 115 + 1
CAAGGUUACACUGAUGCGAAUAGUGUGACCUUGCUGGCGAAAAGCAGGCAAAACGAA-----ACCGCAUUAAAGAUUUAUACAUCACAUUGUUGACUUCUUGUAUUACUUACAGUAGUCA
.((((((((((((.......))))))))))))(((.((.....)).)))........-----...........(((......))).......(((((..(((((.....))))).))))) ( -28.00)
>DroEre_CAF1 5791 93 + 1
CAAGGUUACACUACUUCGAAUAGAGUGACCUUGCUAGCUAAAAGAAGGUAAAACGAAGCAG-----CAUUAAAGAUUUAUACAU----------------------UCUUUCAGCAGCCA
.((((((((.(((.......))).))))))))(((.(((.((((((.(((((.(.((....-----..))...).)))))...)----------------------))))).)))))).. ( -23.20)
>DroYak_CAF1 5674 120 + 1
CUAGGUUACACUAAUGCGACUAGUGUGACCUUGCUAACUAAAAGAAGGUAAAACGAAGCAGCACCGCAUUAAAGAUUUAUACAUCACAUUGUUGAGUUCUUGUAUUACUUUCAGUAGCCA
..(((((((((((.......))))))))))).((((.((....((((((((.((((.((......))......((((((.(((......))))))))).)))).)))))))))))))).. ( -31.60)
>consensus
CAAGGUUACACUGAUGCGAAUAGUGUGACCUUGCUGGCUAAAAGCAGGUAAAACGAAGCAG_ACCGCAUUAAAGAUUUAUACAUCACAUUGUUGACUUCUUGUAUUACUUACAGUAGCCA
.((((((((((((.......))))))))))))(((.((.....)).)))....................................................................... (-16.32 = -16.64 +   0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:20:00 2006