Locus 629

Sequence ID	X_DroMel_CAF1
Location	1,748,279 – 1,748,409
Length	130
Max. P	0.572791

overview

Window 6

Location	1,748,279 – 1,748,372
Length	93
Sequences	6
Columns	100
Reading direction	reverse
Mean pairwise identity	54.83
Mean single sequence MFE	-17.08
Consensus MFE	-5.57
Energy contribution	-6.55
Covariance contribution	0.98
Combinations/Pair	1.67
Mean z-score	-1.28
Structure conservation index	0.33
SVM decision value	0.00
SVM RNA-class probability	0.533908
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1748279 93 - 22224390
CGCACCAUCUGCCAGUUGACGGCU-GGCGGAGAUUGUAAAUCCUCUCCACUAAUCACAAUAUUCCCUAUCAU------UCUUUGCCCAUCUCGUUUGUUC
.(((......((((((.....)))-)))(((((..........)))))........................------....)))............... ( -18.30)
>DroVir_CAF1 13964 93 - 1
ACUCUAUUGUAUUUAUAUAUCGCA-AUAACAUAAUUGAUAACAUGACAGAUUUUGGCUGUGCCUGCGAUUAA------ACUCUAUCAAAUUUCUCAUUCC
......(((.........((((((-....((....))........((((.......))))...))))))...------.......)))............ (  -9.41)
>DroGri_CAF1 13815 93 - 1
AUCCUUUAAUA-----AUAUCGUACAUAACAUUGUUGCC-CCAAAAAAUGUUGUGGC-GAGCAUGCGAAUAAUUGUUGCUUACUUUUGACUUCUCAUUCU
...........-----...((((.(((((((((.((...-...)).)))))))))))-))(((.((((....)))))))..................... ( -16.10)
>DroSec_CAF1 11531 93 - 1
CGCAUCAUCUGCCAGUUGACGGCU-GGCGGAGAUUGCAAAUCCUCUCCACUAAUCACAAUAUAUCCCAUCAU------UCUUUGCCCAUCUCGUUUGUUC
.(((...(((((((((.....)))-))))))...)))...................................------...................... ( -20.20)
>DroSim_CAF1 11758 93 - 1
CGCAUCAUCUGCCAGUUGACGGCU-GGCGGAGAUUGUAAAUCCUCUCCACUAAUCACAAUAUUCCCCAUCAU------UCUUUGCCCAUCUCGUUUGUUC
.(((......((((((.....)))-)))(((((..........)))))........................------....)))............... ( -18.40)
>DroEre_CAF1 11443 93 - 1
CACACCAUCUGCCAGUUGAUGGCU-GGCGGAGAUUGUGAAUCCUCUUUACUAAUCACAAUAUUUCCUAUCAU------UCUUUGCCAAUCUCGUUUGUUC
....(((((........))))).(-((((((((((((((..............)))))).............------)))))))))............. ( -20.05)
>consensus
CGCAUCAUCUGCCAGUUGACGGCU_GGCGGAGAUUGUAAAUCCUCUCCACUAAUCACAAUAUUUCCCAUCAU______UCUUUGCCCAUCUCGUUUGUUC
.(((...(((((((((.....))).))))))...)))............................................................... ( -5.57 =  -6.55 +   0.98)

alignment

secondary structure

dotplot

Window 7

Location	1,748,306 – 1,748,409
Length	103
Sequences	5
Columns	104
Reading direction	reverse
Mean pairwise identity	65.47
Mean single sequence MFE	-25.69
Consensus MFE	-10.44
Energy contribution	-11.04
Covariance contribution	0.60
Combinations/Pair	1.38
Mean z-score	-1.75
Structure conservation index	0.41
SVM decision value	0.08
SVM RNA-class probability	0.572791
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1748306 103 - 22224390
GCAGCAGUGAAUCCACUUUUGCAGGACUUCAAGGUGUCGCACCAUCUGCCAGUUGACGGCU-GGCGGAGAUUGUAAAUCCUCUCCACUAAUCACAAUAUUCCCU
((((.((((....)))).))))((((.(((((((((...)))).(((((((((.....)))-))))))..))).)).))))....................... ( -31.60)
>DroGri_CAF1 13848 97 - 1
CCAAUUAAUAUUGAAUAUCUUUUAUACAUAUAUAAUUAUCCUUUAAUA-----AUAUCGUACAUAACAUUGUUGCC-CCAAAAAAUGUUGUGGC-GAGCAUGCG
........(((((((......(((((....)))))......)))))))-----...((((.(((((((((.((...-...)).)))))))))))-))....... ( -15.30)
>DroSec_CAF1 11558 103 - 1
GCAGCAAUAAUUCCACUUUUGCAGGACUUCAAGGUGUCGCAUCAUCUGCCAGUUGACGGCU-GGCGGAGAUUGCAAAUCCUCUCCACUAAUCACAAUAUAUCCC
...((((...........)))).(((.....(((....(((...(((((((((.....)))-))))))...)))....))).)))................... ( -27.00)
>DroSim_CAF1 11785 103 - 1
GCAGCAAUAAUUCCACUUUUGCAGGACUUCAAGGUGUCGCAUCAUCUGCCAGUUGACGGCU-GGCGGAGAUUGUAAAUCCUCUCCACUAAUCACAAUAUUCCCC
...((((...........)))).(((.....(((....(((...(((((((((.....)))-))))))...)))....))).)))................... ( -25.40)
>DroEre_CAF1 11470 103 - 1
GCAGCAAUGAAUCCACUUUUGCAGGACUUCAAGGUGUCACACCAUCUGCCAGUUGAUGGCU-GGCGGAGAUUGUGAAUCCUCUUUACUAAUCACAAUAUUUCCU
...((((...........))))((((......((((...)))).(((((((((.....)))-)))))).(((((((..............)))))))...)))) ( -29.14)
>consensus
GCAGCAAUAAUUCCACUUUUGCAGGACUUCAAGGUGUCGCAUCAUCUGCCAGUUGACGGCU_GGCGGAGAUUGUAAAUCCUCUCCACUAAUCACAAUAUUUCCC
...(((((...(((.((...((..((((...(((((......)))))...))))....))..)).))).))))).............................. (-10.44 = -11.04 +   0.60)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:49:49 2006