Locus 5769

Sequence ID	2R_DroMel_CAF1
Location	18,290,044 – 18,290,145
Length	101
Max. P	0.969746

overview

Window 2

Location	18,290,044 – 18,290,145
Length	101
Sequences	5
Columns	118
Reading direction	forward
Mean pairwise identity	83.74
Mean single sequence MFE	-24.09
Consensus MFE	-16.89
Energy contribution	-16.93
Covariance contribution	0.04
Combinations/Pair	1.11
Mean z-score	-2.68
Structure conservation index	0.70
SVM decision value	1.65
SVM RNA-class probability	0.969746
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18290044 101 + 20766785
CAGCGAAACACAGAACUUAUCCUGGCCAAAAGCAUCCUUGCCAUAUACA--UAUGCAC---------------CAAGGAUGCUCCGCCAGCCACACAUACAUAUGCGAUAGCAUCACA
..(.((...............(((((....((((((((((.((((....--))))...---------------))))))))))..))))).............(((....))))).). ( -27.10)
>DroSec_CAF1 87340 101 + 1
CAGCGAAACACAGAACUUAUCCUGGCCAAAAGCAUCCUUGUCAUAUACA--UAUGCAC---------------CAAGGAUGCUCCGCCGGCCACACAUACAUAUGCAAUAGCAUCACA
..(.((................(((((...((((((((((.((((....--))))...---------------)))))))))).....)))))..........(((....))))).). ( -26.70)
>DroSim_CAF1 88574 101 + 1
CAGCGAAACACAGAACUUAUCCUGGCCAAAAGCAUUCUUGUCAUAUACA--UAUGCAC---------------CAAGGAUGCUCCGCCAGCCACACAUACAUAUGCGAUAUCAUCACA
............((...(((((((((....((((((((((.((((....--))))...---------------))))))))))..))))).....(((....))).))))...))... ( -22.90)
>DroEre_CAF1 91002 112 + 1
CAACGAAACACAGAACUUAUCCUGGCCAAAAGCAUCCUUGUCAUAUACA--UAUGCACCGAAAGUUAAGGCAGCAAGUAUGCUCCGGCAGCCACAC----AUAUGCGAUAGUAUCACA
....((.((.(((........)))(((...(((((.(((((........--..(((..(....).....)))))))).)))))..)))........----..........)).))... ( -21.30)
>DroYak_CAF1 88611 113 + 1
CAGCGAAACACAGAAUUUAUCCUGGCCAAAAGCAUCCUUGUCAUAUACACACAAGCACCGAAAGUUAAGGCAGCAAGGAUGCUCU-GCAGCCACAC----AUAUGCGAUAGUAUCACA
............((..((((((((((..(.(((((((((((.............((..(....).....)).))))))))))).)-...))))...----....).)))))..))... ( -22.45)
>consensus
CAGCGAAACACAGAACUUAUCCUGGCCAAAAGCAUCCUUGUCAUAUACA__UAUGCAC_______________CAAGGAUGCUCCGCCAGCCACACAUACAUAUGCGAUAGCAUCACA
......................((((....((((((((((.................................))))))))))......)))).........((((....)))).... (-16.89 = -16.93 +   0.04)

alignment

secondary structure

dotplot

Window 3

Location	18,290,044 – 18,290,145
Length	101
Sequences	5
Columns	118
Reading direction	reverse
Mean pairwise identity	83.74
Mean single sequence MFE	-32.53
Consensus MFE	-27.44
Energy contribution	-27.20
Covariance contribution	-0.24
Combinations/Pair	1.13
Mean z-score	-1.76
Structure conservation index	0.84
SVM decision value	0.64
SVM RNA-class probability	0.808315
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18290044 101 - 20766785
UGUGAUGCUAUCGCAUAUGUAUGUGUGGCUGGCGGAGCAUCCUUG---------------GUGCAUA--UGUAUAUGGCAAGGAUGCUUUUGGCCAGGAUAAGUUCUGUGUUUCGCUG
.((((.((..(((((((....)))))))(((((((((((((((((---------------((((...--.))))....))))))))))))..)))))............)).)))).. ( -37.20)
>DroSec_CAF1 87340 101 - 1
UGUGAUGCUAUUGCAUAUGUAUGUGUGGCCGGCGGAGCAUCCUUG---------------GUGCAUA--UGUAUAUGACAAGGAUGCUUUUGGCCAGGAUAAGUUCUGUGUUUCGCUG
.((((.((....(((((....)))))((((((..(((((((((((---------------...((((--....)))).))))))))))))))))).(((.....)))..)).)))).. ( -36.40)
>DroSim_CAF1 88574 101 - 1
UGUGAUGAUAUCGCAUAUGUAUGUGUGGCUGGCGGAGCAUCCUUG---------------GUGCAUA--UGUAUAUGACAAGAAUGCUUUUGGCCAGGAUAAGUUCUGUGUUUCGCUG
.((((.(((((((((((....)))))).((((((((((((.((((---------------...((((--....)))).)))).)))))))..)))))..........))))))))).. ( -31.40)
>DroEre_CAF1 91002 112 - 1
UGUGAUACUAUCGCAUAU----GUGUGGCUGCCGGAGCAUACUUGCUGCCUUAACUUUCGGUGCAUA--UGUAUAUGACAAGGAUGCUUUUGGCCAGGAUAAGUUCUGUGUUUCGUUG
.(.(((((....((.(((----.(.((((((..(((((((.((((..(((.........))).((((--....)))).)))).))))))))))))).)))).))...))))).).... ( -24.80)
>DroYak_CAF1 88611 113 - 1
UGUGAUACUAUCGCAUAU----GUGUGGCUGC-AGAGCAUCCUUGCUGCCUUAACUUUCGGUGCUUGUGUGUAUAUGACAAGGAUGCUUUUGGCCAGGAUAAAUUCUGUGUUUCGCUG
.((((.((..........----.(.((((((.-((((((((((((..(((.........)))((......))......)))))))))))))))))).)...........)).)))).. ( -32.85)
>consensus
UGUGAUGCUAUCGCAUAUGUAUGUGUGGCUGGCGGAGCAUCCUUG_______________GUGCAUA__UGUAUAUGACAAGGAUGCUUUUGGCCAGGAUAAGUUCUGUGUUUCGCUG
.((((......((((........(.((((((..((((((((((((...............((((......))))....)))))))))))))))))).)........))))..)))).. (-27.44 = -27.20 +  -0.24)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:53:58 2006