Locus 5159

Sequence ID 2R_DroMel_CAF1
Location 16,792,409 – 16,792,508
Length 99
Max. P 0.956648
window8249 window8250

overview

Window 9

Location 16,792,409 – 16,792,508
Length 99
Sequences 6
Columns 110
Reading direction forward
Mean pairwise identity 72.94
Mean single sequence MFE -27.52
Consensus MFE -15.96
Energy contribution -14.68
Covariance contribution -1.27
Combinations/Pair 1.42
Mean z-score -1.49
Structure conservation index 0.58
SVM decision value 0.43
SVM RNA-class probability 0.731721
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16792409 99 + 20766785
AUUACU-----A-GGAACAUGUA----U-UCGUUUCAGCUGCUGAUGUAUCAACAAUAUGGUGCAUUGUCGAUGACAAUCAGCAUAGUGCUCUUGAUUGUGGUCGGCAUC
......-----.-(((((.....----.-..))))).......(((((((((......)))))))))((((((.(((((((((.....))...))))))).))))))... ( -31.00)
>DroPse_CAF1 101203 103 + 1
AGUAUU-----G-AGAUUAAUUUCCAUU-UCCAUUCAGCUGCUGAUGUAUCAACAGUACGGCACAUUGUCAGUGUCCAUCAGUGUGCUGCUGCUAAUUGUGGUCGGCAUC
......-----(-((((........)))-))........(((((((....(((.((((((((((((((...........)))))))))).))))..)))..))))))).. ( -26.20)
>DroGri_CAF1 141020 95 + 1
AUUGUUAUAAUA-CC--------------UAUUUACAGCUGUUAAUGUAUCAACAAUAUGGAGCAUUGUCGGUGUCAAUUAGCAUACUGCUGCUCAUCAUUGUGGGCAUC
............-..--------------........((((.((((((.(((......))).)))))).)))).......(((.....)))((((((....))))))... ( -18.50)
>DroEre_CAF1 102042 102 + 1
AUUUCUACU--A-UGGACAUGUA----U-UCGUUUCAGCUGCUGAUGUAUCAACAAUACGGUGCAUUGUCGAUGACAAUCAGCAUAGUGCUUUUGAUUGUGGUCGGCAUC
.........--(-((.((.((((----(-(.(((((((...))))......))))))))))).)))(((((((.(((((((((.....))...))))))).))))))).. ( -28.00)
>DroYak_CAF1 108536 102 + 1
AUUACUACA--A-UGGACAUGUA----U-UCCUUUCAGCUGCUGAUGUAUCAACAAUAUGGUGCAUUGUCGAUGACAAUCAGCAUAGUGCUUUUGAUUGUAGUCGGCAUC
.........--.-.(((......----.-)))...........(((((((((......)))))))))((((((.(((((((((.....))...))))))).))))))... ( -26.40)
>DroAna_CAF1 126861 104 + 1
CUUGAUACU--GACGCACGUUUG----UGUUGUUCCAGCUGCUGCUGUACCAACAGUACGGAGCAUUGUCGGUGACGUUCAGCGUAGUGCUACUGAUUGUGGUUGGCAUC
...(((((.--(((....))).)----))))...(((((..(((((((....))))))((((((((((.((.((.....)).))))))))).)))...)..))))).... ( -35.00)
>consensus
AUUACUAC___A_CGAACAUGUA____U_UCGUUUCAGCUGCUGAUGUAUCAACAAUACGGUGCAUUGUCGAUGACAAUCAGCAUAGUGCUGCUGAUUGUGGUCGGCAUC
....................................((((((((((.((((.(((((.......))))).))))...)))))))....))).(((((....))))).... (-15.96 = -14.68 +  -1.27)

alignment

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secondary structure

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dotplot

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Window 0

Location 16,792,409 – 16,792,508
Length 99
Sequences 6
Columns 110
Reading direction reverse
Mean pairwise identity 72.94
Mean single sequence MFE -25.01
Consensus MFE -13.75
Energy contribution -15.17
Covariance contribution 1.42
Combinations/Pair 1.14
Mean z-score -2.00
Structure conservation index 0.55
SVM decision value 1.47
SVM RNA-class probability 0.956648
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16792409 99 - 20766785
GAUGCCGACCACAAUCAAGAGCACUAUGCUGAUUGUCAUCGACAAUGCACCAUAUUGUUGAUACAUCAGCAGCUGAAACGA-A----UACAUGUUCC-U-----AGUAAU
..((((............).)))...(((((((.((.((((((((((.....)))))))))))))))))))((((.((((.-.----....))))..-)-----)))... ( -22.40)
>DroPse_CAF1 101203 103 - 1
GAUGCCGACCACAAUUAGCAGCAGCACACUGAUGGACACUGACAAUGUGCCGUACUGUUGAUACAUCAGCAGCUGAAUGGA-AAUGGAAAUUAAUCU-C-----AAUACU
(((.(((....((.(((((.((.(((((.((..(....)...)).))))).))..((((((....))))))))))).))..-..)))......))).-.-----...... ( -22.60)
>DroGri_CAF1 141020 95 - 1
GAUGCCCACAAUGAUGAGCAGCAGUAUGCUAAUUGACACCGACAAUGCUCCAUAUUGUUGAUACAUUAACAGCUGUAAAUA--------------GG-UAUUAUAACAAU
((((((.....(((((..((((((((((...((((.......))))....))))))))))...)))))((....)).....--------------))-))))........ ( -20.40)
>DroEre_CAF1 102042 102 - 1
GAUGCCGACCACAAUCAAAAGCACUAUGCUGAUUGUCAUCGACAAUGCACCGUAUUGUUGAUACAUCAGCAGCUGAAACGA-A----UACAUGUCCA-U--AGUAGAAAU
......(((............((...(((((((.((.(((((((((((...))))))))))))))))))))..))......-.----.....)))..-.--......... ( -24.35)
>DroYak_CAF1 108536 102 - 1
GAUGCCGACUACAAUCAAAAGCACUAUGCUGAUUGUCAUCGACAAUGCACCAUAUUGUUGAUACAUCAGCAGCUGAAAGGA-A----UACAUGUCCA-U--UGUAGUAAU
.......((((((((....(((....(((((((.((.((((((((((.....))))))))))))))))))))))....(((-.----......))))-)--))))))... ( -30.90)
>DroAna_CAF1 126861 104 - 1
GAUGCCAACCACAAUCAGUAGCACUACGCUGAACGUCACCGACAAUGCUCCGUACUGUUGGUACAGCAGCAGCUGGAACAACA----CAAACGUGCGUC--AGUAUCAAG
(((((..(((((..(((((........)))))...(((((((((.(((...))).))))))).((((....))))))......----.....))).)).--.)))))... ( -29.40)
>consensus
GAUGCCGACCACAAUCAAAAGCACUAUGCUGAUUGUCACCGACAAUGCACCAUAUUGUUGAUACAUCAGCAGCUGAAACGA_A____UACAUGUCCA_U___GUAGUAAU
...................(((....(((((((.((.((((((((((.....)))))))))))))))))))))).................................... (-13.75 = -15.17 +   1.42)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:38:02 2006