Locus 260

Sequence ID 2R_DroMel_CAF1
Location 1,650,960 – 1,651,110
Length 150
Max. P 0.906000
window554 window555 window556 window557

overview

Window 4

Location 1,650,960 – 1,651,071
Length 111
Sequences 3
Columns 115
Reading direction forward
Mean pairwise identity 88.41
Mean single sequence MFE -22.70
Consensus MFE -17.13
Energy contribution -18.13
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -1.95
Structure conservation index 0.75
SVM decision value -0.08
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1650960 111 + 20766785
----GUUUUUUGAAACAGUGAUUUGAAAUGCUUUGUUCUCAUUUCUCUCAUACAUACCCACAUGUAAAUAAACGUAUUGGUUUAAUGACACAUGCAGCUUAUUUGUAUGUGUUAU
----((((....)))).((((...((((((.........))))))..))))((((......))))...(((((......)))))(((((((((((((.....))))))))))))) ( -22.70)
>DroSec_CAF1 36847 115 + 1
UUUUUUUUUUUGAUACAGUGAUUUGAAAUGCUUUGUUCUCAUUUCUCUCAUACAUACCCACAUGUAAAUAAACGUAUUGGUUUAAUGACACAUGCAGCUUGUUUGUAUGUGUUCU
.........(..((((.((((...((((((.........))))))..))))((((......))))........))))..)......(((((((((((.....))))))))))).. ( -23.10)
>DroEre_CAF1 40531 107 + 1
UUUUUUUUUUUGAUACAGUGAUUUGAAAUGCUUUGUUCUCAUUUCUCUCA--------CACAUGUAAAUAAAAGUAUUGGUUUAAUGACACAUGCAGUUUAUUUGUAUGUGUACG
.........(..((((.((((...((((((.........))))))..)))--------)..((....))....))))..).......((((((((((.....))))))))))... ( -22.30)
>consensus
UUUUUUUUUUUGAUACAGUGAUUUGAAAUGCUUUGUUCUCAUUUCUCUCAUACAUACCCACAUGUAAAUAAACGUAUUGGUUUAAUGACACAUGCAGCUUAUUUGUAUGUGUUCU
.........(..((((.((((...((((((.........))))))..))))..........((....))....))))..)......(((((((((((.....))))))))))).. (-17.13 = -18.13 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 1,650,960 – 1,651,071
Length 111
Sequences 3
Columns 115
Reading direction reverse
Mean pairwise identity 88.41
Mean single sequence MFE -20.90
Consensus MFE -15.40
Energy contribution -16.40
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -2.58
Structure conservation index 0.74
SVM decision value 0.47
SVM RNA-class probability 0.747521
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1650960 111 - 20766785
AUAACACAUACAAAUAAGCUGCAUGUGUCAUUAAACCAAUACGUUUAUUUACAUGUGGGUAUGUAUGAGAGAAAUGAGAACAAAGCAUUUCAAAUCACUGUUUCAAAAAAC----
..((((((((((....(.(..((((((....(((((......)))))..))))))..).).))))))...((((((.........)))))).......)))).........---- ( -22.10)
>DroSec_CAF1 36847 115 - 1
AGAACACAUACAAACAAGCUGCAUGUGUCAUUAAACCAAUACGUUUAUUUACAUGUGGGUAUGUAUGAGAGAAAUGAGAACAAAGCAUUUCAAAUCACUGUAUCAAAAAAAAAAA
.(((((((((((.((...(..((((((....(((((......)))))..))))))..))).))))))...((((((.........)))))).......))).))........... ( -23.80)
>DroEre_CAF1 40531 107 - 1
CGUACACAUACAAAUAAACUGCAUGUGUCAUUAAACCAAUACUUUUAUUUACAUGUG--------UGAGAGAAAUGAGAACAAAGCAUUUCAAAUCACUGUAUCAAAAAAAAAAA
.......(((((........(((((((....((((........))))..)))))))(--------(((..((((((.........))))))...)))))))))............ ( -16.80)
>consensus
AGAACACAUACAAAUAAGCUGCAUGUGUCAUUAAACCAAUACGUUUAUUUACAUGUGGGUAUGUAUGAGAGAAAUGAGAACAAAGCAUUUCAAAUCACUGUAUCAAAAAAAAAAA
.......(((((......(((((((((....(((((......)))))..))))))))).......(((..((((((.........))))))...))).)))))............ (-15.40 = -16.40 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 1,650,993 – 1,651,110
Length 117
Sequences 4
Columns 118
Reading direction forward
Mean pairwise identity 91.95
Mean single sequence MFE -28.90
Consensus MFE -22.23
Energy contribution -24.60
Covariance contribution 2.37
Combinations/Pair 1.03
Mean z-score -3.18
Structure conservation index 0.77
SVM decision value 1.04
SVM RNA-class probability 0.906000
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1650993 117 + 20766785
CUCAUUUCUCUCAUACAUACCCACAUGUAAAUAAACGUAUUGGUUUAAUGACACAUGCAGCUUAUUUGUAUGUGUUAU-UUUUUUGGCAAUUUCACAUCCAGGUGUGUAUGUAUUAUC
...........((((((((((...((((...(((((......)))))(((((((((((((.....)))))))))))))-...............))))...))))))))))....... ( -31.90)
>DroSec_CAF1 36884 118 + 1
CUCAUUUCUCUCAUACAUACCCACAUGUAAAUAAACGUAUUGGUUUAAUGACACAUGCAGCUUGUUUGUAUGUGUUCUGUUUUUUGGCCAUUUCACAUCCAGGUGUGUAUGUAUUAUC
...........((((((((((...((((......))))..(((((.((((((((((((((.....)))))))))))..)))....)))))...........))))))))))....... ( -30.10)
>DroSim_CAF1 33762 118 + 1
CUCAUUUCUCUCAUACAUGCCCACAUGUAAAUAAACGUAUUGGUUUAAUGACACAUGCAGCUUGUUUGUAUGUGUUCUGUUUUUUGGCAAUUUCACAUCCAGGUGUGUAUGUAUUAUC
...........((((((((((...((((...(((((......)))))..(((((((((((.....))))))))))).((((....)))).....))))...))))))))))....... ( -29.00)
>DroEre_CAF1 40568 110 + 1
CUCAUUUCUCUCA--------CACAUGUAAAUAAAAGUAUUGGUUUAAUGACACAUGCAGUUUAUUUGUAUGUGUACGGUUUUUUGCCAGUUUCACAUCCAGGUGUGUAUGUAUUAUC
.............--------.(((((...........((((((..(((.((((((((((.....))))))))))...)))....))))))..(((((....))))))))))...... ( -24.60)
>consensus
CUCAUUUCUCUCAUACAUACCCACAUGUAAAUAAACGUAUUGGUUUAAUGACACAUGCAGCUUAUUUGUAUGUGUUCUGUUUUUUGGCAAUUUCACAUCCAGGUGUGUAUGUAUUAUC
...........((((((((((...((((...(((((......)))))..(((((((((((.....)))))))))))..................))))...))))))))))....... (-22.23 = -24.60 +   2.37)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 1,650,993 – 1,651,110
Length 117
Sequences 4
Columns 118
Reading direction reverse
Mean pairwise identity 91.95
Mean single sequence MFE -24.60
Consensus MFE -20.12
Energy contribution -22.38
Covariance contribution 2.25
Combinations/Pair 1.00
Mean z-score -2.21
Structure conservation index 0.82
SVM decision value 1.01
SVM RNA-class probability 0.899869
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1650993 117 - 20766785
GAUAAUACAUACACACCUGGAUGUGAAAUUGCCAAAAAA-AUAACACAUACAAAUAAGCUGCAUGUGUCAUUAAACCAAUACGUUUAUUUACAUGUGGGUAUGUAUGAGAGAAAUGAG
.......((((((.(((((.(((((((............-...((((((.((.......)).))))))...(((((......)))))))))))).))))).))))))........... ( -27.30)
>DroSec_CAF1 36884 118 - 1
GAUAAUACAUACACACCUGGAUGUGAAAUGGCCAAAAAACAGAACACAUACAAACAAGCUGCAUGUGUCAUUAAACCAAUACGUUUAUUUACAUGUGGGUAUGUAUGAGAGAAAUGAG
.......((((((.(((((.(((((((..............((.(((((.((.......)).)))))))..(((((......)))))))))))).))))).))))))........... ( -27.90)
>DroSim_CAF1 33762 118 - 1
GAUAAUACAUACACACCUGGAUGUGAAAUUGCCAAAAAACAGAACACAUACAAACAAGCUGCAUGUGUCAUUAAACCAAUACGUUUAUUUACAUGUGGGCAUGUAUGAGAGAAAUGAG
.......((((((..((((.(((((((..............((.(((((.((.......)).)))))))..(((((......)))))))))))).))))..))))))........... ( -25.80)
>DroEre_CAF1 40568 110 - 1
GAUAAUACAUACACACCUGGAUGUGAAACUGGCAAAAAACCGUACACAUACAAAUAAACUGCAUGUGUCAUUAAACCAAUACUUUUAUUUACAUGUG--------UGAGAGAAAUGAG
...........(((((.((...((((((..((.......))(.((((((.((.......)).))))))).............))))))...)).)))--------))........... ( -17.40)
>consensus
GAUAAUACAUACACACCUGGAUGUGAAAUUGCCAAAAAACAGAACACAUACAAACAAGCUGCAUGUGUCAUUAAACCAAUACGUUUAUUUACAUGUGGGUAUGUAUGAGAGAAAUGAG
.......((((((.(((((.(((((((................((((((.((.......)).))))))...(((((......)))))))))))).))))).))))))........... (-20.12 = -22.38 +   2.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:33:54 2006