Locus 7067

Sequence ID 3L_DroMel_CAF1
Location 19,130,199 – 19,130,358
Length 159
Max. P 0.998813
window11452 window11453 window11454 window11455

overview

Window 2

Location 19,130,199 – 19,130,318
Length 119
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 95.64
Mean single sequence MFE -29.03
Consensus MFE -26.04
Energy contribution -25.92
Covariance contribution -0.12
Combinations/Pair 1.06
Mean z-score -2.32
Structure conservation index 0.90
SVM decision value 3.24
SVM RNA-class probability 0.998813
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19130199 119 + 23771897
UU-UUGUUCGAAUAAAAUGCAAAUUGCUUCAAGCAGGCGCUAGCUCAAUAUUUGCAUUGCCAAUUAGCAUAUUAAAAAUAUCUCCCCCGAACGAAACGGUCGGGGAGAACAUGUUUUUAU
..-.((((.......(((((((((.(((...(((....)))))).....))))))))).......))))...(((((((((.((((((((.((...)).)))))).))..))))))))). ( -31.44)
>DroSec_CAF1 17622 119 + 1
UU-UUGUUCGAAUAAAAUGCAAAUUGCUUCAAGCAGGCGCUAGCUCAAUAUUUGCAUUGCCAAUUAGCAUAUUAAAAAUAUCUGCCCCGAACGAAACGGUCGGGGAAAACAUGUUUUUAU
..-.((((.......(((((((((.(((...(((....)))))).....))))))))).......))))...(((((((((.(.((((((.((...)).))))))...).))))))))). ( -30.34)
>DroSim_CAF1 18495 119 + 1
UU-UUGUUCGAAUAAAAUGCAAAUUGCUUCAAGCAGGCGCUAGCUCAAUAUUUGCAUUGCCAAUUAGCAUAUUAAAAAUAUCUGCCCCGAACGAAACGGUCGGGGAAAACAUGUUUUUAU
..-.((((.......(((((((((.(((...(((....)))))).....))))))))).......))))...(((((((((.(.((((((.((...)).))))))...).))))))))). ( -30.34)
>DroEre_CAF1 11145 119 + 1
UU-UUGUUCGUAUAAAAUGCAAAUUGCUUCAAGCAGGCGCUAGCUCAAUAUUUGCAUUGCCAAUUAGCAUAUUAAAAAUAUCUCCCCCCAAUGAAAUAGUCGGGGCAAACAUGUUUUUAU
..-.((((.((....(((((((((.(((...(((....)))))).....)))))))))....)).))))...(((((((((....((((.((......)).)))).....))))))))). ( -25.20)
>DroYak_CAF1 16064 119 + 1
UUUUUGUUCGAAUAAAAUGCAAAUUGCUUCAAGCAGGCGCUAGCUCAAUAUUUGCAUUGCCAAUUAGCAUAUUAAAAAUAUCUCCC-CGAAUGAAAUAGCCGGGGAAAACAUGUUUUUAU
....((((.......(((((((((.(((...(((....)))))).....))))))))).......))))...(((((((((.((((-((...........))))))....))))))))). ( -27.84)
>consensus
UU_UUGUUCGAAUAAAAUGCAAAUUGCUUCAAGCAGGCGCUAGCUCAAUAUUUGCAUUGCCAAUUAGCAUAUUAAAAAUAUCUCCCCCGAACGAAACGGUCGGGGAAAACAUGUUUUUAU
....((((.......(((((((((.(((...(((....)))))).....))))))))).......))))...(((((((((...((((((.((...)).)))))).....))))))))). (-26.04 = -25.92 +  -0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 19,130,199 – 19,130,318
Length 119
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 95.64
Mean single sequence MFE -29.56
Consensus MFE -26.76
Energy contribution -26.72
Covariance contribution -0.04
Combinations/Pair 1.06
Mean z-score -2.11
Structure conservation index 0.91
SVM decision value 2.92
SVM RNA-class probability 0.997725
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19130199 119 - 23771897
AUAAAAACAUGUUCUCCCCGACCGUUUCGUUCGGGGGAGAUAUUUUUAAUAUGCUAAUUGGCAAUGCAAAUAUUGAGCUAGCGCCUGCUUGAAGCAAUUUGCAUUUUAUUCGAACAA-AA
.........(((((.((((((.((...)).))))))(((............((((....))))((((((((.(..(((........)))..)....))))))))....)))))))).-.. ( -32.20)
>DroSec_CAF1 17622 119 - 1
AUAAAAACAUGUUUUCCCCGACCGUUUCGUUCGGGGCAGAUAUUUUUAAUAUGCUAAUUGGCAAUGCAAAUAUUGAGCUAGCGCCUGCUUGAAGCAAUUUGCAUUUUAUUCGAACAA-AA
.(((((..((((((.((((((.((...)).)))))).)))))))))))...((((....))))((((((((.(..(((........)))..)....)))))))).............-.. ( -30.10)
>DroSim_CAF1 18495 119 - 1
AUAAAAACAUGUUUUCCCCGACCGUUUCGUUCGGGGCAGAUAUUUUUAAUAUGCUAAUUGGCAAUGCAAAUAUUGAGCUAGCGCCUGCUUGAAGCAAUUUGCAUUUUAUUCGAACAA-AA
.(((((..((((((.((((((.((...)).)))))).)))))))))))...((((....))))((((((((.(..(((........)))..)....)))))))).............-.. ( -30.10)
>DroEre_CAF1 11145 119 - 1
AUAAAAACAUGUUUGCCCCGACUAUUUCAUUGGGGGGAGAUAUUUUUAAUAUGCUAAUUGGCAAUGCAAAUAUUGAGCUAGCGCCUGCUUGAAGCAAUUUGCAUUUUAUACGAACAA-AA
.........((((((((((((........))))))................((((....))))((((((((.(..(((........)))..)....))))))))......)))))).-.. ( -27.70)
>DroYak_CAF1 16064 119 - 1
AUAAAAACAUGUUUUCCCCGGCUAUUUCAUUCG-GGGAGAUAUUUUUAAUAUGCUAAUUGGCAAUGCAAAUAUUGAGCUAGCGCCUGCUUGAAGCAAUUUGCAUUUUAUUCGAACAAAAA
.((((((.....(((((((((.........)))-))))))..))))))...((((....))))((((((((.(..(((........)))..)....))))))))................ ( -27.70)
>consensus
AUAAAAACAUGUUUUCCCCGACCGUUUCGUUCGGGGGAGAUAUUUUUAAUAUGCUAAUUGGCAAUGCAAAUAUUGAGCUAGCGCCUGCUUGAAGCAAUUUGCAUUUUAUUCGAACAA_AA
.(((((..((((((.((((((.(.....).)))))).)))))))))))...((((....))))((((((((.(..(((........)))..)....))))))))................ (-26.76 = -26.72 +  -0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 19,130,238 – 19,130,358
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 95.33
Mean single sequence MFE -28.12
Consensus MFE -24.88
Energy contribution -24.60
Covariance contribution -0.28
Combinations/Pair 1.09
Mean z-score -1.79
Structure conservation index 0.88
SVM decision value 1.84
SVM RNA-class probability 0.979749
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19130238 120 + 23771897
UAGCUCAAUAUUUGCAUUGCCAAUUAGCAUAUUAAAAAUAUCUCCCCCGAACGAAACGGUCGGGGAGAACAUGUUUUUAUCGCUUUUUCAUGUGGGCUCUAUUUGCCCAAACUCGAAAUA
.(((.............(((......)))...(((((((((.((((((((.((...)).)))))).))..)))))))))..))).((((...(((((.......))))).....)))).. ( -30.60)
>DroSec_CAF1 17661 120 + 1
UAGCUCAAUAUUUGCAUUGCCAAUUAGCAUAUUAAAAAUAUCUGCCCCGAACGAAACGGUCGGGGAAAACAUGUUUUUAUCGCUUUUUCAUGUGGGCUCUGUUUGCCCAAACUCGAAAUA
.(((.............(((......)))...(((((((((.(.((((((.((...)).))))))...).)))))))))..))).((((...(((((.......))))).....)))).. ( -29.50)
>DroSim_CAF1 18534 120 + 1
UAGCUCAAUAUUUGCAUUGCCAAUUAGCAUAUUAAAAAUAUCUGCCCCGAACGAAACGGUCGGGGAAAACAUGUUUUUAUCGCUUUUUCAUGUGGGCUCUGUUUGCCCAAACUCGAAAUA
.(((.............(((......)))...(((((((((.(.((((((.((...)).))))))...).)))))))))..))).((((...(((((.......))))).....)))).. ( -29.50)
>DroEre_CAF1 11184 120 + 1
UAGCUCAAUAUUUGCAUUGCCAAUUAGCAUAUUAAAAAUAUCUCCCCCCAAUGAAAUAGUCGGGGCAAACAUGUUUUUAUCGUUUUUUCAUGUGGGCUCUGUUUGCCCAAGCUCGAAAUA
.((((........(((((((......)))...(((((((((....((((.((......)).)))).....)))))))))..........))))((((.......)))).))))....... ( -24.00)
>DroYak_CAF1 16104 119 + 1
UAGCUCAAUAUUUGCAUUGCCAAUUAGCAUAUUAAAAAUAUCUCCC-CGAAUGAAAUAGCCGGGGAAAACAUGUUUUUAUCGCUUUUUCAUGUGGGCUCUGUUUGCCCAAACUCGAAAUA
.(((.............(((......)))...(((((((((.((((-((...........))))))....)))))))))..))).((((...(((((.......))))).....)))).. ( -27.00)
>consensus
UAGCUCAAUAUUUGCAUUGCCAAUUAGCAUAUUAAAAAUAUCUCCCCCGAACGAAACGGUCGGGGAAAACAUGUUUUUAUCGCUUUUUCAUGUGGGCUCUGUUUGCCCAAACUCGAAAUA
.(((.............(((......)))...(((((((((...((((((.((...)).)))))).....)))))))))..))).((((...(((((.......))))).....)))).. (-24.88 = -24.60 +  -0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 19,130,238 – 19,130,358
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 95.33
Mean single sequence MFE -30.76
Consensus MFE -27.34
Energy contribution -27.34
Covariance contribution -0.00
Combinations/Pair 1.09
Mean z-score -1.89
Structure conservation index 0.89
SVM decision value 2.17
SVM RNA-class probability 0.989604
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19130238 120 - 23771897
UAUUUCGAGUUUGGGCAAAUAGAGCCCACAUGAAAAAGCGAUAAAAACAUGUUCUCCCCGACCGUUUCGUUCGGGGGAGAUAUUUUUAAUAUGCUAAUUGGCAAUGCAAAUAUUGAGCUA
..(((((.((..((((.......)))))).))))).(((..(((((..(((((..((((((.((...)).))))))..))))))))))...((((....)))).............))). ( -33.00)
>DroSec_CAF1 17661 120 - 1
UAUUUCGAGUUUGGGCAAACAGAGCCCACAUGAAAAAGCGAUAAAAACAUGUUUUCCCCGACCGUUUCGUUCGGGGCAGAUAUUUUUAAUAUGCUAAUUGGCAAUGCAAAUAUUGAGCUA
..(((((.((..((((.......)))))).))))).(((..(((((..((((((.((((((.((...)).)))))).)))))))))))...((((....)))).............))). ( -31.40)
>DroSim_CAF1 18534 120 - 1
UAUUUCGAGUUUGGGCAAACAGAGCCCACAUGAAAAAGCGAUAAAAACAUGUUUUCCCCGACCGUUUCGUUCGGGGCAGAUAUUUUUAAUAUGCUAAUUGGCAAUGCAAAUAUUGAGCUA
..(((((.((..((((.......)))))).))))).(((..(((((..((((((.((((((.((...)).)))))).)))))))))))...((((....)))).............))). ( -31.40)
>DroEre_CAF1 11184 120 - 1
UAUUUCGAGCUUGGGCAAACAGAGCCCACAUGAAAAAACGAUAAAAACAUGUUUGCCCCGACUAUUUCAUUGGGGGGAGAUAUUUUUAAUAUGCUAAUUGGCAAUGCAAAUAUUGAGCUA
.......(((((((((.......)))))..........(((((.(((.((((((.((((.............)))).)))))).)))....((((....)))).......))))))))). ( -29.02)
>DroYak_CAF1 16104 119 - 1
UAUUUCGAGUUUGGGCAAACAGAGCCCACAUGAAAAAGCGAUAAAAACAUGUUUUCCCCGGCUAUUUCAUUCG-GGGAGAUAUUUUUAAUAUGCUAAUUGGCAAUGCAAAUAUUGAGCUA
..(((((.((..((((.......)))))).))))).(((..((((((.....(((((((((.........)))-))))))..))))))...((((....)))).............))). ( -29.00)
>consensus
UAUUUCGAGUUUGGGCAAACAGAGCCCACAUGAAAAAGCGAUAAAAACAUGUUUUCCCCGACCGUUUCGUUCGGGGGAGAUAUUUUUAAUAUGCUAAUUGGCAAUGCAAAUAUUGAGCUA
.......(((((((((.......))))..........(((.(((((..((((((.((((((.(.....).)))))).)))))))))))...((((....)))).))).......))))). (-27.34 = -27.34 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:36:48 2006