Locus 5419

Sequence ID 2L_DroMel_CAF1
Location 15,452,926 – 15,453,096
Length 170
Max. P 0.977832
window8601 window8602 window8603 window8604

overview

Window 1

Location 15,452,926 – 15,453,016
Length 90
Sequences 5
Columns 90
Reading direction reverse
Mean pairwise identity 94.89
Mean single sequence MFE -23.76
Consensus MFE -18.84
Energy contribution -19.84
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -1.87
Structure conservation index 0.79
SVM decision value 0.60
SVM RNA-class probability 0.794819
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15452926 90 - 22407834
ACAUUCUGUCGAUCCACACACCCACCAACAAAAUGUGGAUCGCCCCAGGAUGCGUGCCAACCUUGGGGUCCCAUCAUCAUCGAUCGAUUC
....((.(((((((((((...............))))))))((((((((.((.....)).)).))))))............))).))... ( -25.66)
>DroSec_CAF1 191052 90 - 1
ACAUUCUGUGGAUCCACACACCCACCAACAAAAUGUGGAUCGCCCCAGGAUGCGUGGCAACCUUGGGGUCCCAUCAUCAUCGAUCGAUUC
....((.(((((((((((...............))))))))((((((((.(((...))).)).))))))........))).))....... ( -27.06)
>DroSim_CAF1 197006 90 - 1
ACAUUCUGUCGAACCACACACCCACCAACAAAAUGUGGAUCGCCCCAGGAUGCGUGGCAACCUUGGGGUCCCAUCAUCAUCGAUCGAUUC
....((.(((((.(((((...............)))))...((((((((.(((...))).)).))))))..........))))).))... ( -25.36)
>DroEre_CAF1 201310 90 - 1
ACAUUCCGCCGAUCCACACACCCACCAACAAAAUGUGGACCGCCCCAGGAUGCGUGGCAACCUUGGGGUCCCAUCAUCAUCGAUCGAUUC
.........(((((.......((((.........))))...((((((((.(((...))).)).))))))............))))).... ( -24.30)
>DroYak_CAF1 198580 90 - 1
ACAUUCUGUCUAUCCCCACACCCACCAACAAAAUGUGUAUCGCCCCAGGAUGCGUGCCAAGCUUGGGGUCCCAUCAUCAUCGAUCGAUUG
.((.((.(((.......((((.............))))...((((((((..(....)....))))))))............))).)).)) ( -16.42)
>consensus
ACAUUCUGUCGAUCCACACACCCACCAACAAAAUGUGGAUCGCCCCAGGAUGCGUGGCAACCUUGGGGUCCCAUCAUCAUCGAUCGAUUC
.......(((((((.......((((.........))))...((((((((.((.....))..))))))))............))))))).. (-18.84 = -19.84 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 15,452,943 – 15,453,056
Length 113
Sequences 5
Columns 113
Reading direction forward
Mean pairwise identity 95.39
Mean single sequence MFE -40.58
Consensus MFE -36.64
Energy contribution -37.16
Covariance contribution 0.52
Combinations/Pair 1.09
Mean z-score -1.18
Structure conservation index 0.90
SVM decision value 0.15
SVM RNA-class probability 0.609887
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15452943 113 + 22407834
UGGGACCCCAAGGUUGGCACGCAUCCUGGGGCGAUCCACAUUUUGUUGGUGGGUGUGUGGAUCGACAGAAUGUGGGUUGAGGUCACUGGGUGGGGACUUGAGCAGAAUGGACA
.....(((((.((.((.....)).)))))))(((((((((((((((((((..........)))))))))))))))))))..(((.(((...(....).....)))....))). ( -41.50)
>DroSec_CAF1 191069 113 + 1
UGGGACCCCAAGGUUGCCACGCAUCCUGGGGCGAUCCACAUUUUGUUGGUGGGUGUGUGGAUCCACAGAAUGUGGGUUGAGGUCACUGGGUGGGGACUUGAGCAGAAUGGACA
..((((((((.((.(((...))).)))))))...))).((((((((((.(.(((((.(.(((((((.....))))))).).).)))).).)(....)...))))))))).... ( -41.20)
>DroSim_CAF1 197023 113 + 1
UGGGACCCCAAGGUUGCCACGCAUCCUGGGGCGAUCCACAUUUUGUUGGUGGGUGUGUGGUUCGACAGAAUGUGGGUUGAGGUCACUGGGUGGGGACUUGAGCAGAAUGGACA
(((....)))(((((.((((.((.(((....((((((((((((((((((............)))))))))))))))))))))....)).)))).))))).............. ( -42.20)
>DroEre_CAF1 201327 112 + 1
UGGGACCCCAAGGUUGCCACGCAUCCUGGGGCGGUCCACAUUUUGUUGGUGGGUGUGUGGAUCGGCGGAAUGUGGGUUGAGGUCACUGGGUGGGGACUUCAGCAGAAUGGAC-
...(.(((((.((.(((...))).))))))))...(((((((((((((((..........)))))))))))))))(((((((((.((....)).))))))))).........- ( -44.90)
>DroYak_CAF1 198597 112 + 1
UGGGACCCCAAGCUUGGCACGCAUCCUGGGGCGAUACACAUUUUGUUGGUGGGUGUGGGGAUAGACAGAAUGUGGGUUGAGGUCACUGGGUGGGGACUUGAGCAGAAUGGAC-
(((....))).(((..(..(.(((((..((.(((..(((((((((((.((..........)).)))))))))))..)))...))...))))).)...)..))).........- ( -33.10)
>consensus
UGGGACCCCAAGGUUGCCACGCAUCCUGGGGCGAUCCACAUUUUGUUGGUGGGUGUGUGGAUCGACAGAAUGUGGGUUGAGGUCACUGGGUGGGGACUUGAGCAGAAUGGACA
.....(((((.((.((.....)).)))))))(((((((((((((((((((..........)))))))))))))))))))..(((.(((...(....).....)))....))). (-36.64 = -37.16 +   0.52)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 15,452,943 – 15,453,056
Length 113
Sequences 5
Columns 113
Reading direction reverse
Mean pairwise identity 95.39
Mean single sequence MFE -27.13
Consensus MFE -24.08
Energy contribution -25.88
Covariance contribution 1.80
Combinations/Pair 1.00
Mean z-score -1.48
Structure conservation index 0.89
SVM decision value 0.98
SVM RNA-class probability 0.893727
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15452943 113 - 22407834
UGUCCAUUCUGCUCAAGUCCCCACCCAGUGACCUCAACCCACAUUCUGUCGAUCCACACACCCACCAACAAAAUGUGGAUCGCCCCAGGAUGCGUGCCAACCUUGGGGUCCCA
...........................(.((((((((....(((((((.(((((((((...............)))))))))...))))))).((....)).)))))))).). ( -30.06)
>DroSec_CAF1 191069 113 - 1
UGUCCAUUCUGCUCAAGUCCCCACCCAGUGACCUCAACCCACAUUCUGUGGAUCCACACACCCACCAACAAAAUGUGGAUCGCCCCAGGAUGCGUGGCAACCUUGGGGUCCCA
...........................(.(((((((((((.(((((((.(((((((((...............)))))))).)..))))))).).)).....)))))))).). ( -30.86)
>DroSim_CAF1 197023 113 - 1
UGUCCAUUCUGCUCAAGUCCCCACCCAGUGACCUCAACCCACAUUCUGUCGAACCACACACCCACCAACAAAAUGUGGAUCGCCCCAGGAUGCGUGGCAACCUUGGGGUCCCA
...........................(.(((((((((((.(((((((.(((.(((((...............))))).)))...))))))).).)).....)))))))).). ( -28.66)
>DroEre_CAF1 201327 112 - 1
-GUCCAUUCUGCUGAAGUCCCCACCCAGUGACCUCAACCCACAUUCCGCCGAUCCACACACCCACCAACAAAAUGUGGACCGCCCCAGGAUGCGUGGCAACCUUGGGGUCCCA
-.........((((...........))))((((((((.((((..(((..((.((((((...............)))))).)).....)))...)))).....))))))))... ( -27.56)
>DroYak_CAF1 198597 112 - 1
-GUCCAUUCUGCUCAAGUCCCCACCCAGUGACCUCAACCCACAUUCUGUCUAUCCCCACACCCACCAACAAAAUGUGUAUCGCCCCAGGAUGCGUGCCAAGCUUGGGGUCCCA
-..........................(.((((((((..(.(((((((........((((.............))))........))))))).).((...)))))))))).). ( -18.51)
>consensus
UGUCCAUUCUGCUCAAGUCCCCACCCAGUGACCUCAACCCACAUUCUGUCGAUCCACACACCCACCAACAAAAUGUGGAUCGCCCCAGGAUGCGUGGCAACCUUGGGGUCCCA
...........................(.(((((((((((.(((((((.(((((((((...............)))))))))...))))))).).)).....)))))))).). (-24.08 = -25.88 +   1.80)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 15,452,978 – 15,453,096
Length 118
Sequences 5
Columns 118
Reading direction forward
Mean pairwise identity 86.89
Mean single sequence MFE -35.44
Consensus MFE -30.62
Energy contribution -30.86
Covariance contribution 0.24
Combinations/Pair 1.10
Mean z-score -2.11
Structure conservation index 0.86
SVM decision value 1.80
SVM RNA-class probability 0.977832
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15452978 118 + 22407834
CCACAUUUUGUUGGUGGGUGUGUGGAUCGACAGAAUGUGGGUUGAGGUCACUGGGUGGGGACUUGAGCAGAAUGGACAAUGGUAUUGUAUUUGGUUAACAGGCCUAAAGGUCUUCCAA
(((((((((((((((..........)))))))))))))))(((.(((((.((....)).))))).)))....(((((((...........)))......(((((....))))))))). ( -37.00)
>DroSec_CAF1 191104 118 + 1
CCACAUUUUGUUGGUGGGUGUGUGGAUCCACAGAAUGUGGGUUGAGGUCACUGGGUGGGGACUUGAGCAGAAUGGACAAUGGUAUUGUAUUUGGUUAACAGGCCUAAAGGUCUUUCAA
(((((((((((....((((......)))))))))))))))(((.(((((.((....)).))))).))).(((.((((...(((.((((.........))))))).....))))))).. ( -34.60)
>DroSim_CAF1 197058 118 + 1
CCACAUUUUGUUGGUGGGUGUGUGGUUCGACAGAAUGUGGGUUGAGGUCACUGGGUGGGGACUUGAGCAGAAUGGACAAUGGUAUUGUAUUUGGUUAACAGGCCUAAAGGUCUUCCAA
((((((((((((((............))))))))))))))(((.(((((.((....)).))))).)))....(((((((...........)))......(((((....))))))))). ( -35.80)
>DroEre_CAF1 201362 103 + 1
CCACAUUUUGUUGGUGGGUGUGUGGAUCGGCGGAAUGUGGGUUGAGGUCACUGGGUGGGGACUUCAGCAGAAUGGAC-------------UUGGUUAAGAGACCUAAAGGUCUA--CU
(((((((((((((((..........)))))))))))))))(((((((((.((....)).)))))))))....(((((-------------((((((....))))...)))))))--.. ( -39.80)
>DroYak_CAF1 198632 105 + 1
ACACAUUUUGUUGGUGGGUGUGGGGAUAGACAGAAUGUGGGUUGAGGUCACUGGGUGGGGACUUGAGCAGAAUGGAC-------------UUGGUUAAGAGACCUAAAGGUCUUCGCC
.(((((((((((.((..........)).))))))))))).(((.(((((.((....)).))))).))).........-------------..(((...((((((....)))))).))) ( -30.00)
>consensus
CCACAUUUUGUUGGUGGGUGUGUGGAUCGACAGAAUGUGGGUUGAGGUCACUGGGUGGGGACUUGAGCAGAAUGGACAAUGGUAUUGUAUUUGGUUAACAGGCCUAAAGGUCUUCCAA
(((((((((((((((..........)))))))))))))))(((.(((((.((....)).))))).)))...............................(((((....)))))..... (-30.62 = -30.86 +   0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:43:42 2006