Locus 7445

Sequence ID 2L_DroMel_CAF1
Location 20,667,887 – 20,668,207
Length 320
Max. P 0.986063
window11966 window11967 window11968 window11969 window11970

overview

Window 6

Location 20,667,887 – 20,668,007
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 92.67
Mean single sequence MFE -33.90
Consensus MFE -25.52
Energy contribution -25.96
Covariance contribution 0.44
Combinations/Pair 1.11
Mean z-score -2.53
Structure conservation index 0.75
SVM decision value 1.08
SVM RNA-class probability 0.912476
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20667887 120 + 22407834
UAACAAUUGUUUCUGAUUUUUUGCCUUGACUGGACUCGGUCAUGGUCUUCCCAUCUGGAUUGCUGGUGAAGUUGCUCUUGACCGCAUUCGAGGUUCUCUUCACCUCCACCAGAGCUUCAU
.............(((......(((.((((((....)))))).))).......(((((..((..(((((((..((.(((((......)))))))...)))))))..)))))))...))). ( -35.10)
>DroSec_CAF1 20735 120 + 1
UAACAAUUGUUUCUGAUUUUUUGCCUUGACUGGACUCGGUCAUGGUCUUCCCAUCUGGAUUGCUGGUGAAGUUGCUCUUGACCGCAUUCGAGGUUCUCUUCACCUCCACCAGAGCUUCAU
.............(((......(((.((((((....)))))).))).......(((((..((..(((((((..((.(((((......)))))))...)))))))..)))))))...))). ( -35.10)
>DroSim_CAF1 21061 120 + 1
UAACAAUUGUUUCUGAUUUUUUGCCUUGACUGGACUCGGUCAUGUUCUUCCCAUCUGGAUUGCUGGUGAAGUUGCUCUUGACCGCAUUCGAGGUUCUCUUCACCUCCACCAGAGCUUCAU
......................((..((((((....))))))...........(((((..((..(((((((..((.(((((......)))))))...)))))))..)))))))))..... ( -31.50)
>DroEre_CAF1 20371 120 + 1
UAACAAUUGUUUCCGGUUUUUUGCCUUGACUGGAUUCUGUCAUGGUUUUUCCCUCUGGAUUGCUGGUGAAGUUGCUCUUGACCGCAUUGGAGGUUCUCUUCACUUCCACCAGAGCUUCAU
..............((......(((.((((........)))).)))....))((((((..(((.(((.(((.....))).)))))).(((((((.......)))))))))))))...... ( -35.40)
>DroYak_CAF1 20301 120 + 1
UAGCUAUUGUUUCCGGUUUUUUACCUUGACUGGAUUCUGUCAUGGUUUUUCCAUCGGGAUUGCUGGUAAAGUUGCUCUUGACUGCAUUGGAGCUUCUCUUCACUUCUACCAGAGCUUCAU
.((((.....(((((((.....(((.((((........)))).)))......)))))))...(((((((((((((........)))..((((.....)))))))).)))))))))).... ( -32.40)
>consensus
UAACAAUUGUUUCUGAUUUUUUGCCUUGACUGGACUCGGUCAUGGUCUUCCCAUCUGGAUUGCUGGUGAAGUUGCUCUUGACCGCAUUCGAGGUUCUCUUCACCUCCACCAGAGCUUCAU
......................(((.((((((....)))))).))).......(((((..(((.(((.(((.....))).))))))...(((((.......)))))..)))))....... (-25.52 = -25.96 +   0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 20,667,887 – 20,668,007
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 92.67
Mean single sequence MFE -28.72
Consensus MFE -23.50
Energy contribution -22.86
Covariance contribution -0.64
Combinations/Pair 1.19
Mean z-score -1.39
Structure conservation index 0.82
SVM decision value 0.16
SVM RNA-class probability 0.612132
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20667887 120 - 22407834
AUGAAGCUCUGGUGGAGGUGAAGAGAACCUCGAAUGCGGUCAAGAGCAACUUCACCAGCAAUCCAGAUGGGAAGACCAUGACCGAGUCCAGUCAAGGCAAAAAAUCAGAAACAAUUGUUA
.....((..((((((((((.......)))))((...((((((.(.(...((((.(((.(......).))))))).)).))))))..)))).)))..))...................... ( -29.70)
>DroSec_CAF1 20735 120 - 1
AUGAAGCUCUGGUGGAGGUGAAGAGAACCUCGAAUGCGGUCAAGAGCAACUUCACCAGCAAUCCAGAUGGGAAGACCAUGACCGAGUCCAGUCAAGGCAAAAAAUCAGAAACAAUUGUUA
.....((..((((((((((.......)))))((...((((((.(.(...((((.(((.(......).))))))).)).))))))..)))).)))..))...................... ( -29.70)
>DroSim_CAF1 21061 120 - 1
AUGAAGCUCUGGUGGAGGUGAAGAGAACCUCGAAUGCGGUCAAGAGCAACUUCACCAGCAAUCCAGAUGGGAAGAACAUGACCGAGUCCAGUCAAGGCAAAAAAUCAGAAACAAUUGUUA
.....((..((((((((((.......)))))((...((((((.(.....((((.(((.(......).)))))))..).))))))..)))).)))..))...................... ( -29.20)
>DroEre_CAF1 20371 120 - 1
AUGAAGCUCUGGUGGAAGUGAAGAGAACCUCCAAUGCGGUCAAGAGCAACUUCACCAGCAAUCCAGAGGGAAAAACCAUGACAGAAUCCAGUCAAGGCAAAAAACCGGAAACAAUUGUUA
......((((((((((.((.......)).)))).((((((.(((.....))).))).)))..))))))((.....((.((((........)))).)).......))(....)........ ( -29.40)
>DroYak_CAF1 20301 120 - 1
AUGAAGCUCUGGUAGAAGUGAAGAGAAGCUCCAAUGCAGUCAAGAGCAACUUUACCAGCAAUCCCGAUGGAAAAACCAUGACAGAAUCCAGUCAAGGUAAAAAACCGGAAACAAUAGCUA
....((((((((((((..((....((.((......))..)).....))..))))))))...(((....)))...(((.((((........)))).)))........(....)...)))). ( -25.60)
>consensus
AUGAAGCUCUGGUGGAGGUGAAGAGAACCUCGAAUGCGGUCAAGAGCAACUUCACCAGCAAUCCAGAUGGGAAGACCAUGACCGAGUCCAGUCAAGGCAAAAAAUCAGAAACAAUUGUUA
.......((((((...(((((((.(.....)...(((........))).))))))).((..(((....))).......((((........))))..)).....))))))........... (-23.50 = -22.86 +  -0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 20,667,927 – 20,668,047
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 93.42
Mean single sequence MFE -37.36
Consensus MFE -30.46
Energy contribution -30.54
Covariance contribution 0.08
Combinations/Pair 1.13
Mean z-score -2.36
Structure conservation index 0.82
SVM decision value 2.03
SVM RNA-class probability 0.986063
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20667927 120 + 22407834
CAUGGUCUUCCCAUCUGGAUUGCUGGUGAAGUUGCUCUUGACCGCAUUCGAGGUUCUCUUCACCUCCACCAGAGCUUCAUAUUUCUCGACUAGGUCCCGAUAAGGAUUUGGUUUGUCGCU
..(((.....)))(((((..((..(((((((..((.(((((......)))))))...)))))))..)))))))((..((........((((((((((......))))))))))))..)). ( -36.80)
>DroSec_CAF1 20775 120 + 1
CAUGGUCUUCCCAUCUGGAUUGCUGGUGAAGUUGCUCUUGACCGCAUUCGAGGUUCUCUUCACCUCCACCAGAGCUUCAUAUUUCUCGACUAGGUCCCGAUAGGGAUUUGGUUUGUCGCU
..(((.....)))(((((..((..(((((((..((.(((((......)))))))...)))))))..)))))))((..((........(((((((((((....)))))))))))))..)). ( -41.10)
>DroSim_CAF1 21101 120 + 1
CAUGUUCUUCCCAUCUGGAUUGCUGGUGAAGUUGCUCUUGACCGCAUUCGAGGUUCUCUUCACCUCCACCAGAGCUUCAUAUUUCUCGACUAGGUCCCGAUAGGGAUUUGGUUUGUCGCU
.............(((((..((..(((((((..((.(((((......)))))))...)))))))..)))))))((..((........(((((((((((....)))))))))))))..)). ( -39.90)
>DroEre_CAF1 20411 120 + 1
CAUGGUUUUUCCCUCUGGAUUGCUGGUGAAGUUGCUCUUGACCGCAUUGGAGGUUCUCUUCACUUCCACCAGAGCUUCAUACUUCUCGACUAGAUCCCGAUAGGGAUUUGGUUUCUCGCC
...(((......((((((..(((.(((.(((.....))).)))))).(((((((.......))))))))))))).............(((((((((((....)))))))))))....))) ( -42.20)
>DroYak_CAF1 20341 120 + 1
CAUGGUUUUUCCAUCGGGAUUGCUGGUAAAGUUGCUCUUGACUGCAUUGGAGCUUCUCUUCACUUCUACCAGAGCUUCAUAUUUCUCGACUAGGUCUCGAUACGGAUUUGGUUUGUCGCU
.((((.....))))(((((.(((.(((.(((.....))).)))))).((((((((................))))))))....)))))(((((((((......)))))))))........ ( -26.79)
>consensus
CAUGGUCUUCCCAUCUGGAUUGCUGGUGAAGUUGCUCUUGACCGCAUUCGAGGUUCUCUUCACCUCCACCAGAGCUUCAUAUUUCUCGACUAGGUCCCGAUAGGGAUUUGGUUUGUCGCU
.............(((((..(((.(((.(((.....))).))))))...(((((.......)))))..)))))..............(((((((((((....)))))))))))....... (-30.46 = -30.54 +   0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 20,668,007 – 20,668,127
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 94.42
Mean single sequence MFE -37.37
Consensus MFE -34.30
Energy contribution -33.82
Covariance contribution -0.48
Combinations/Pair 1.17
Mean z-score -1.32
Structure conservation index 0.92
SVM decision value 0.83
SVM RNA-class probability 0.862450
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20668007 120 + 22407834
AUUUCUCGACUAGGUCCCGAUAAGGAUUUGGUUUGUCGCUAGAGUUGGGAUUGAGGUCCUCGGGAAUCCGGAAGCGUUCCUUAUAAUCCGCACCACUAUUAUCGCAUUUCGAGGUGCUUU
.......((((.(((((((((.....((((((.....)))))))))))))))..))))...((((((.(....).))))))........(((((.......(((.....))))))))... ( -32.91)
>DroSec_CAF1 20855 120 + 1
AUUUCUCGACUAGGUCCCGAUAGGGAUUUGGUUUGUCGCUAGAGUUGGGAUUGAGGUCCUCGGGAAUCCGGAAGCGUUCCUUAUAAUCCGCAGCACUAUUAUCGCAUUUCGAGGUGCUUU
...(((((((((((((((....)))))))))......(((((.((((((((((((...)))((((((.(....).))))))...))))).)))).))).....))...))))))...... ( -40.10)
>DroSim_CAF1 21181 120 + 1
AUUUCUCGACUAGGUCCCGAUAGGGAUUUGGUUUGUCGCUAGAGUUGGGAUUGAGGUCCUCGGGAAUCCGGAAGCGUUCCUUAUAAUCCGCAGCACUAUUAUCGCAUUUCGAGGUGCUUU
...(((((((((((((((....)))))))))......(((((.((((((((((((...)))((((((.(....).))))))...))))).)))).))).....))...))))))...... ( -40.10)
>DroEre_CAF1 20491 120 + 1
ACUUCUCGACUAGAUCCCGAUAGGGAUUUGGUUUCUCGCCAGAGUUGGGAUUAAGGUCCUCGGAAAUCCGAAAGCGUUCCUUAUAAUCCGCAGCACUGUUAUCGCACUUCGAGGUGCUUU
.......(((((((((((....)))))))))))......(((.(((((((((((((..(((((....))))....)..)))..)))))).)))).))).....(((((....)))))... ( -42.60)
>DroYak_CAF1 20421 120 + 1
AUUUCUCGACUAGGUCUCGAUACGGAUUUGGUUUGUCGCUAGAGUUCGGAUUAAGGUCCUCGGGAAUCCGAAAGCGUUCCUUAUAGUCCGCAGCACUAUUAUCACAUUUCGAGGUGCUUU
.......((((((..((..((.((((((((((.....)))))).)))).))..))..)...((((((.(....).))))))..)))))...((((((...............)))))).. ( -31.16)
>consensus
AUUUCUCGACUAGGUCCCGAUAGGGAUUUGGUUUGUCGCUAGAGUUGGGAUUGAGGUCCUCGGGAAUCCGGAAGCGUUCCUUAUAAUCCGCAGCACUAUUAUCGCAUUUCGAGGUGCUUU
...(((((((((((((((....)))))))))........(((.(((((((((((((..(((((....))))....)..)))))..)))).)))).)))..........))))))...... (-34.30 = -33.82 +  -0.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 20,668,087 – 20,668,207
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 95.33
Mean single sequence MFE -26.99
Consensus MFE -25.60
Energy contribution -25.32
Covariance contribution -0.28
Combinations/Pair 1.10
Mean z-score -1.25
Structure conservation index 0.95
SVM decision value 0.77
SVM RNA-class probability 0.845710
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20668087 120 - 22407834
CAACACCAAUAUGGAUGAUCAAUCCUCCAUUGCCCCAACCGAAGAAAUCUACGAAGAUGACGAUCGCAGCAUACUAAGCGAAAGCACCUCGAAAUGCGAUAAUAGUGGUGCGGAUUAUAA
.....((...(((((.((....)).))))).((.(((..((.((....)).)).........((((((.........((....)).........)))))).....))).))))....... ( -26.47)
>DroSec_CAF1 20935 120 - 1
CAACACCAAUAUGGAUGAUCAAUCCUCCAUUGCGCCAACCGAAGAAAUCUACGAAGAUGACGAUCGCAGCAUACUAAGCGAAAGCACCUCGAAAUGCGAUAAUAGUGCUGCGGAUUAUAA
......((((..((((.....))))...))))......((((.(..((((....))))..)..))(((((((.....((....))...(((.....))).....)))))))))....... ( -27.40)
>DroSim_CAF1 21261 120 - 1
CAACACCAAUAUGGAUGAUCAAUCCUCCAUUGCGCCAACCGAAGAAAUCUACGAAGAUGACGAUCGCAGCAUACUAAGCGAAAGCACCUCGAAAUGCGAUAAUAGUGCUGCGGAUUAUAA
......((((..((((.....))))...))))......((((.(..((((....))))..)..))(((((((.....((....))...(((.....))).....)))))))))....... ( -27.40)
>DroEre_CAF1 20571 120 - 1
UAACACCAAUAUGGAUGAUCAGUCCUCCAUUGCUCCAACCGAAGAAAUCUAUGAAGAUGACGAUCGCAGCAUACUAAGCGAAAGCACCUCGAAGUGCGAUAACAGUGCUGCGGAUUAUAA
..........(((((.((....)).)))))...(((....((.(..((((....))))..)..))(((((((.....((....))...(((.....))).....))))))))))...... ( -28.30)
>DroYak_CAF1 20501 120 - 1
UAAUACCAAUAUGGAUGAUCAAUCCUCCAUUGCUCCAACCGAAGAAAUUUAUGAAGAUGACGAUCGCAGCAUAUUAAGCGAAAGCACCUCGAAAUGUGAUAAUAGUGCUGCGGACUAUAA
......((((..((((.....))))...)))).(((...................(((....)))(((((((((((.((....))...(((.....))))))).))))))))))...... ( -25.40)
>consensus
CAACACCAAUAUGGAUGAUCAAUCCUCCAUUGCGCCAACCGAAGAAAUCUACGAAGAUGACGAUCGCAGCAUACUAAGCGAAAGCACCUCGAAAUGCGAUAAUAGUGCUGCGGAUUAUAA
......((((..((((.....))))...))))......((((.(..((((....))))..)..))(((((((.....((....))...(((.....))).....)))))))))....... (-25.60 = -25.32 +  -0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:37:04 2006