Locus 6718

Sequence ID	2L_DroMel_CAF1
Location	18,753,980 – 18,754,119
Length	139
Max. P	0.972294

overview

Window 7

Location	18,753,980 – 18,754,079
Length	99
Sequences	5
Columns	106
Reading direction	forward
Mean pairwise identity	87.51
Mean single sequence MFE	-33.50
Consensus MFE	-25.28
Energy contribution	-26.52
Covariance contribution	1.24
Combinations/Pair	1.13
Mean z-score	-2.65
Structure conservation index	0.75
SVM decision value	1.69
SVM RNA-class probability	0.972294
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18753980 99 + 22407834
CAACCUCA------UCGCGGGCAUCAUGAGCCUUC-CAUCGGUAAUGGGUGUUGAAUGGCGAGGCACAUCUCCGUCGACUUUUGAUAUCCAUUACUAAUGGGUGUA
........------.(((((((.......)))).(-(((..(((((((((((..((((((((((....))).)))))...))..)))))))))))..))))))).. ( -35.30)
>DroSec_CAF1 17506 100 + 1
CAUCCUCA------UCCCGGGCAUCAUGAGCCUUCCCAUCGGUAAUGGGUGUUGACUGGCAAGGCACAUCUCCGCCGACUUUUGAUAUCCAUUACUAAUGGGUGUA
........------....((((.......)))).(((((..(((((((((((..(..(....(((........)))..)..)..)))))))))))..))))).... ( -35.90)
>DroSim_CAF1 17722 100 + 1
CAUCCUCA------UCCCGGGCAUCAUGAGCCUUCCCAUCGGUAAUGGGUGUUGACUGGCAAGGCACAUCUCCGCCGACUUUUGAUAUCCAUUACUAAUGGGUGUA
........------....((((.......)))).(((((..(((((((((((..(..(....(((........)))..)..)..)))))))))))..))))).... ( -35.90)
>DroEre_CAF1 17704 100 + 1
CAUCCUCAUCCGCAUCCCAGGCAUCAUGAGUCUU-----CGGUAAUGGGUGUUGAAUGGCGCGGCACAUCUCCAGCGACUUUUGAUAUCCAUUACUAAAAGGUAU-
....(((((..((.......))...)))))((((-----.((((((((((((..((...(((((.......)).)))...))..))))))))))))..))))...- ( -29.00)
>DroYak_CAF1 17663 95 + 1
CAUCCUCA------UGCCAGGCAUCAUGAGUCUU-----CGGUAAUGGGUGUUGAACGGCGAGGCACAUCUCCACCGACUUUUGAUAUCCAUUACUAAUGGGUGUA
((((((((------((........))))).....-----.((((((((((((..(((((.((((....))))..)))...))..))))))))))))...))))).. ( -31.40)
>consensus
CAUCCUCA______UCCCGGGCAUCAUGAGCCUUC_CAUCGGUAAUGGGUGUUGAAUGGCGAGGCACAUCUCCGCCGACUUUUGAUAUCCAUUACUAAUGGGUGUA
(((((.............((((.......)))).......((((((((((((..(((((((.((.....)).)))))...))..))))))))))))...))))).. (-25.28 = -26.52 +   1.24)

alignment

secondary structure

dotplot

Window 8

Location	18,754,001 – 18,754,119
Length	118
Sequences	5
Columns	119
Reading direction	forward
Mean pairwise identity	77.20
Mean single sequence MFE	-34.10
Consensus MFE	-19.62
Energy contribution	-20.34
Covariance contribution	0.72
Combinations/Pair	1.16
Mean z-score	-2.30
Structure conservation index	0.58
SVM decision value	1.69
SVM RNA-class probability	0.972173
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18754001 118 + 22407834
GAGCCUUC-CAUCGGUAAUGGGUGUUGAAUGGCGAGGCACAUCUCCGUCGACUUUUGAUAUCCAUUACUAAUGGGUGUAUAGAGCUUAAAUUUAGUUGAACCAAUCAUCAGUCAUUAUC
((((((((-(((..(((((((((((..((((((((((....))).)))))...))..)))))))))))..))))).....)).)))).......(((((........)))).)...... ( -33.40)
>DroSec_CAF1 17527 119 + 1
GAGCCUUCCCAUCGGUAAUGGGUGUUGACUGGCAAGGCACAUCUCCGCCGACUUUUGAUAUCCAUUACUAAUGGGUGUAUAGAGCUUAAAUUUAGUUGAACCAAAUAUCAGUCAUUAGC
((((((.(((((..(((((((((((..(..(....(((........)))..)..)..)))))))))))..))))).....)).)))).......(((((........)))).)...... ( -36.60)
>DroSim_CAF1 17743 106 + 1
GAGCCUUCCCAUCGGUAAUGGGUGUUGACUGGCAAGGCACAUCUCCGCCGACUUUUGAUAUCCAUUACUAAUGGGUGUAUAGAGACUGUAU-------------ACAUCAGUGAUUAGC
((......((((..(((((((((((..(..(....(((........)))..)..)..)))))))))))..))))((((((((...))))))-------------)).)).......... ( -35.70)
>DroEre_CAF1 17731 98 + 1
GAGUCUU-----CGGUAAUGGGUGUUGAAUGGCGCGGCACAUCUCCAGCGACUUUUGAUAUCCAUUACUAAAAGGUAU----------------GCUUUACAUAGCACCAGUCUACAGC
.((.((.-----.((((((((((((..((...(((((.......)).)))...))..))))))))))))....(((..----------------(((......)))))))).))..... ( -29.80)
>DroYak_CAF1 17684 114 + 1
GAGUCUU-----CGGUAAUGGGUGUUGAACGGCGAGGCACAUCUCCACCGACUUUUGAUAUCCAUUACUAAUGGGUGUAUAGAGCUUUAAUGAAGCUUUACAUAGCAUCAGUCUAUAGC
.((.((.-----.((((((((((((..(((((.((((....))))..)))...))..))))))))))))....(((((.(((((((((...)))))))))....))))))).))..... ( -35.00)
>consensus
GAGCCUUC_CAUCGGUAAUGGGUGUUGAAUGGCGAGGCACAUCUCCGCCGACUUUUGAUAUCCAUUACUAAUGGGUGUAUAGAGCUUAAAU__AGCUGAACAAAACAUCAGUCAUUAGC
..((((.......((((((((((((..(((((((.((.....)).)))))...))..))))))))))))...))))........................................... (-19.62 = -20.34 +   0.72)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:18:20 2006