Locus 7977

Sequence ID	X_DroMel_CAF1
Location	19,873,412 – 19,873,572
Length	160
Max. P	0.861707

overview

Window 6

Location	19,873,412 – 19,873,532
Length	120
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	98.33
Mean single sequence MFE	-41.61
Consensus MFE	-41.12
Energy contribution	-41.23
Covariance contribution	0.11
Combinations/Pair	1.03
Mean z-score	-1.89
Structure conservation index	0.99
SVM decision value	0.83
SVM RNA-class probability	0.861707
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19873412 120 + 22224390
UGGAGCAUCGAGCAUCUGCGGUCGGAGCCGCUUCGUCAUCGUUGUUGCCUCGUUGCCAUACACUUUGAUUAAAGUGAAAAUAAAUGAGGGUCCUAGGCAACUGCUGUUGGCCUAGACCCA
.((((((.(((......(((((....))))).......))).)))).))(((((......((((((....))))))......)))))(((((.((((((((....))).)))))))))). ( -42.42)
>DroSec_CAF1 27603 120 + 1
UGGAGCAUCGAGCAUCUGCGGUCGGAGCCGCUUCGUCAUCGUUGUUGCCUCGUUGCCAUACACUUUGAUUAAAGUGAAAAUAAAUGAGGGUCCUAGGCAACUGCUGUUGGCCUAGACCCA
.((((((.(((......(((((....))))).......))).)))).))(((((......((((((....))))))......)))))(((((.((((((((....))).)))))))))). ( -42.42)
>DroEre_CAF1 4993 120 + 1
UGGAGCAUCGAGCAUCUGCGGUCGAAGUCGCUUCGUCAUCGUUGUUGCCUCGUUGCCAUACACUUUGAUUAAAGUGAAAAUAAAUGAGGGUCCUAGGCAACUGCUGCUGGCCUAGACCCA
..(.(((.((((((...((((((((((...)))))..)))))...)).)))).))))...((((((....))))))...........(((((.(((((..(....)...)))))))))). ( -40.00)
>consensus
UGGAGCAUCGAGCAUCUGCGGUCGGAGCCGCUUCGUCAUCGUUGUUGCCUCGUUGCCAUACACUUUGAUUAAAGUGAAAAUAAAUGAGGGUCCUAGGCAACUGCUGUUGGCCUAGACCCA
..(.(((.((((((...((((((((((...)))))..)))))...)).)))).))))...((((((....))))))...........(((((.((((((((....))).)))))))))). (-41.12 = -41.23 +   0.11)

alignment

secondary structure

dotplot

Window 7

Location	19,873,412 – 19,873,532
Length	120
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	98.33
Mean single sequence MFE	-37.97
Consensus MFE	-37.42
Energy contribution	-37.53
Covariance contribution	0.11
Combinations/Pair	1.03
Mean z-score	-1.62
Structure conservation index	0.99
SVM decision value	0.37
SVM RNA-class probability	0.709309
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19873412 120 - 22224390
UGGGUCUAGGCCAACAGCAGUUGCCUAGGACCCUCAUUUAUUUUCACUUUAAUCAAAGUGUAUGGCAACGAGGCAACAACGAUGACGAAGCGGCUCCGACCGCAGAUGCUCGAUGCUCCA
.((((((((((.(((....)))))))).)))))...........((((((....))))))...((((.((((.((.(..((....))..((((......)))).).)))))).))))... ( -39.00)
>DroSec_CAF1 27603 120 - 1
UGGGUCUAGGCCAACAGCAGUUGCCUAGGACCCUCAUUUAUUUUCACUUUAAUCAAAGUGUAUGGCAACGAGGCAACAACGAUGACGAAGCGGCUCCGACCGCAGAUGCUCGAUGCUCCA
.((((((((((.(((....)))))))).)))))...........((((((....))))))...((((.((((.((.(..((....))..((((......)))).).)))))).))))... ( -39.00)
>DroEre_CAF1 4993 120 - 1
UGGGUCUAGGCCAGCAGCAGUUGCCUAGGACCCUCAUUUAUUUUCACUUUAAUCAAAGUGUAUGGCAACGAGGCAACAACGAUGACGAAGCGACUUCGACCGCAGAUGCUCGAUGCUCCA
.((((((((((.(((....)))))))).)))))...........((((((....))))))...((((.((((.((.(..((....(((((...)))))..))..).)))))).))))... ( -35.90)
>consensus
UGGGUCUAGGCCAACAGCAGUUGCCUAGGACCCUCAUUUAUUUUCACUUUAAUCAAAGUGUAUGGCAACGAGGCAACAACGAUGACGAAGCGGCUCCGACCGCAGAUGCUCGAUGCUCCA
.((((((((((.(((....)))))))).)))))...........((((((....))))))...((((.((((.((.(..((....))..((((......)))).).)))))).))))... (-37.42 = -37.53 +   0.11)

alignment

secondary structure

dotplot

Window 8

Location	19,873,452 – 19,873,572
Length	120
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	90.23
Mean single sequence MFE	-25.90
Consensus MFE	-25.33
Energy contribution	-25.67
Covariance contribution	0.33
Combinations/Pair	1.00
Mean z-score	-1.45
Structure conservation index	0.98
SVM decision value	0.62
SVM RNA-class probability	0.803322
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19873452 120 + 22224390
GUUGUUGCCUCGUUGCCAUACACUUUGAUUAAAGUGAAAAUAAAUGAGGGUCCUAGGCAACUGCUGUUGGCCUAGACCCAUUCUCUGCCCCAUUCCCAAUCUCCAUCUCCAUCUCCACCU
(..((((..(((((......((((((....))))))......)))))(((((.((((((((....))).)))))))))).................))))..)................. ( -26.80)
>DroSec_CAF1 27643 108 + 1
GUUGUUGCCUCGUUGCCAUACACUUUGAUUAAAGUGAAAAUAAAUGAGGGUCCUAGGCAACUGCUGUUGGCCUAGACCCAUUCUCUGCCCCAUU------------CCCCAUCCCCAUCU
......((.(((((......((((((....))))))......)))))(((((.((((((((....))).)))))))))).......))......------------.............. ( -26.70)
>DroEre_CAF1 5033 108 + 1
GUUGUUGCCUCGUUGCCAUACACUUUGAUUAAAGUGAAAAUAAAUGAGGGUCCUAGGCAACUGCUGCUGGCCUAGACCCAUUCUAUGCCCCAUU------------CCCCAUCUCCAUCU
.......(((((((......((((((....))))))......)))))))((..(((....)))..)).(((.((((.....)))).))).....------------.............. ( -24.20)
>consensus
GUUGUUGCCUCGUUGCCAUACACUUUGAUUAAAGUGAAAAUAAAUGAGGGUCCUAGGCAACUGCUGUUGGCCUAGACCCAUUCUCUGCCCCAUU____________CCCCAUCUCCAUCU
......((.(((((......((((((....))))))......)))))(((((.((((((((....))).)))))))))).......))................................ (-25.33 = -25.67 +   0.33)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:52:13 2006